Attachment #144093 for bug #191336




# $FreeBSD$

PORTNAME=	consed
PORTVERSION=	27.0
CATEGORIES=	biology
MASTER_SITES=	http://www.phrap.org/consed/distributions/${PORTVERSION}/
DISTNAME=	${PORTNAME}_linux
EXTRACT_SUFX=	.tar.Z

MAINTAINER=	mzaki@m.u-tokyo.ac.jp
COMMENT=	Graphical tool for editing Phrap assemblies

RUN_DEPENDS=	phred:${PORTSDIR}/biology/phred \
		phrap:${PORTSDIR}/biology/phrap
		phd2fasta:${PORTSDIR}/biology/phd2fasta

CONFLICTS_INSTALL=	phd2fasta-[0-9]*

SUB_FILES=	pkg-message

USES=		perl5
USE_LINUX=	yes
USE_LINUX_APPS=	xorglibs

.endif

NO_WRKSUBDIR=	yes
NO_BUILD=	yes

BUILD_WRKSRC=	${WRKSRC}/misc/mktrace
ALL_TARGET=	mktrace

BINARIES=	consed mktrace sffinfo sff2scf
CONTRIBS=	ace2OligosWithComments.perl ace2fof \
		aceContigs2Phds.perl acestatus.pl export_cons \
		mergeAces.perl recover_consensus_tags revert_fof
SCRIPTS=	ace2Fasta.perl ace2Oligos.perl addReads2Consed.perl \
		amplifyTranscripts.perl catPhdFiles.perl \
		countEditedBases.perl determineReadTypes.perl fasta2Phd.perl \
		findSequenceMatchesForConsed.perl lib2Phd.perl \
		orderPrimerPairs.perl phd2Ace.perl phredPhrap removeReads \
		revertToUneditedRead tagRepeats.perl transferConsensusTags.perl
.for f in ${BINARIES} ${CONTRIBS} ${SCRIPTS}
PLIST_FILES+=	bin/${f}
.endfor

DATADIR=	${PREFIX}/lib/screenLibs
DATAFILES=	primerCloneScreen.seq primerSubcloneScreen.seq \
		repeats.fasta singleVectorForRestrictionDigest.fasta
NULLFILES=	vector.seq
.for f in ${DATAFILES} ${NULLFILES}
PORTDATA+=	${f}.dist
.endfor
PORTDOCS=	README.txt

NO_STAGE=	yes

OPTIONS_DEFINE=	DOCS EXAMPLES

.include <bsd.port.options.mk>

.if ${PORT_OPTIONS:MEXAMPLES}
EXAMPLES=	standard autofinish assembly_view polyphred
PLIST=		${PKGDIR}/pkg-plist.examples
.endif

post-build:
	(cd ${WRKSRC}/misc/454; ${CC} ${CFLAGS} sffinfo.c -o sffinfo)
	(cd ${WRKSRC}/misc/454; ${CC} ${CFLAGS} sff2scf.c -o sff2scf)

do-install:
	${MKDIR} ${STAGEDIR}${DATADIR}
	${LN} -sf ../../bin ${STAGEDIR}${DATADIR}/bin
	(cd ${WRKSRC}; ${ENV} CC=${CC} ./installConsed.perl consed_linux32bit ${STAGEDIR}${DATADIR})
	${LN} -sf ../../../etc/PhredPar/phredpar.dat ${STAGEDIR}${DATADIR}/lib/phredpar.dat
.for f in ${BINARIES}
	@${CHMOD} a-r ${PREFIX}/bin/${f}
.endfor
.for f in ${CONTRIBS}
	@${INSTALL_SCRIPT} ${WRKSRC}/contributions/${f} ${PREFIX}/bin/
.endfor
.for f in ${SCRIPTS}
	@${INSTALL_SCRIPT} ${WRKSRC}/scripts/${f} ${PREFIX}/bin/
.endfor
	@${MKDIR} ${DATADIR}
.for f in ${DATAFILES}
	@${INSTALL_DATA} ${WRKSRC}/misc/${f} ${DATADIR}/${f}.dist
.endfor
.for f in ${NULLFILES}
	@${INSTALL_DATA} /dev/null ${DATADIR}/${f}.dist
.endfor
.if ${PORT_OPTIONS:MEXAMPLES}
	@${MKDIR} ${EXAMPLESDIR}
.for dir in ${EXAMPLES}
	@${CP} -R ${WRKSRC}/${dir} ${EXAMPLESDIR}
.endfor
.endif
.if ${PORT_OPTIONS:MDOCS}
	@${MKDIR} ${DOCSDIR}
.for f in ${PORTDOCS}
	@${INSTALL_DATA} ${WRKSRC}/${f} ${DOCSDIR}
.endfor
.endif
.if ! ${PORT_OPTIONS:MEXAMPLES}
	@${ECHO_CMD} "Examples were not installed. You can define WITH_EXAMPLES=yes to install them."
.endif
	@${ECHO_CMD} "You must set the CONSED_HOME environment variable to '${PREFIX}'"

.include <bsd.port.mk>

Lines 1-2 Link Here

(-)distinfo (-2 / +2 lines)
1	SHA256 (consed_linux.tar.Z) = ac9ce155ce46f7200accaa033c9b1ea1d8c071c68c2a82ab5f4b623d9ff6b117	1	SHA256 (consed_linux.tar.gz) = 8038d2b94078ba918e97785fc7497252139029281000f1c54ff9dd1ec70e05fc
2	SIZE (consed_linux.tar.Z) = 27555099	2	SIZE (consed_linux.tar.gz) = 34390726




--- installConsed.perl.orig	2014-02-12 05:28:45.000000000 +0900
+++ installConsed.perl	2014-06-24 16:57:29.000000000 +0900
@@ -9,7 +9,7 @@
 # and this must be empty and must allow write access
 
 # edit this if you are using a different compiler than gcc
-$CC = "gcc";
+$CC = $ENV{'CC'};
 
 $szVersion = "25.0";
 
@@ -78,9 +78,9 @@
 $szHowToStartOver = "if you have had an error in the midst of this script, you have a problem because some things have been done and others not done.  The cleanest solution is to go back to where nothing is done.  To do that, type:\nrm -rf $szConsedHome/bin\nrm -rf $szConsedHome/lib\nrm -rf $szConsedHome/examples";
 
 
-if ( -e "$szConsedHome/bin" ) {
-   die "$szConsedHome/bin already exists\n$szHowToStartOver\n";
-}
+#if ( -e "$szConsedHome/bin" ) {
+#   die "$szConsedHome/bin already exists\n$szHowToStartOver\n";
+#}
 
 if ( -e "$szConsedHome/lib" ) {
    die "$szConsedHome/lib already exists\n$szHowToStartOver\n";
@@ -91,7 +91,7 @@
 }
 
 
-&doCommand( "mkdir $szConsedHome/bin" );
+#&doCommand( "mkdir $szConsedHome/bin" );
 &doCommand( "mkdir -p $szConsedHome/lib/screenLibs" );
 &doCommand( "mkdir $szConsedHome/examples" );
 &doCommand( "cp $szConsedExecutable $szConsedHome/bin" );
@@ -101,7 +101,7 @@
 print "done\n";
 &doCommand( "cp README.txt $szConsedHome" );
 
-&doCommand( "chmod -R a+w $szConsedHome/examples/*" );
+#&doCommand( "chmod -R a+w $szConsedHome/examples/*" );
 
 &doCommand( "cp $szDownloadDirectory/scripts/* $szConsedHome/bin" );
 
@@ -112,7 +112,7 @@
 @aScreenLibs = split(' ', $szScreenLibs );
 foreach $szScreenFile ( @aScreenLibs ) {
    print "about to cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs\n";
-   &doCommand( "cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs" );
+   &doCommand( "cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs/$szScreenFile.sample" );
 }
 
 

Lines 1-11 Link Here

(-)files/patch-scripts_addReads2Consed.perl (-11 lines)
1	--- scripts/addReads2Consed.perl.orig 2007-09-26 04:02:19.000000000 +0900
2	+++ scripts/addReads2Consed.perl 2007-12-11 17:27:20.000000000 +0900
3	@@ -71,7 +71,7 @@
4	$szVectorFile = $szConsedHome . "/lib/screenLibs/vector.seq";
5
6	# change this to reflect wherever you put the phred parameter file
7	-$szPhredParameterFile = $szConsedHome . "/lib/phredpar.dat";
8	+$szPhredParameterFile = $szConsedHome . "/etc/PhredPar/phredpar.dat";
9	#$szPhredParameterFile = "/usr/local/common/lib/PhredPar/phredpar.dat";
10	#$szPhredParameterFile = "/usr/local/etc/PhredPar/phredpar.dat";
11

Lines 1-11 Link Here

(-)files/patch-scripts_determineReadTypes.perl (-11 lines)
1	--- scripts/determineReadTypes.perl.orig Tue Aug 31 03:14:13 2004
2	+++ scripts/determineReadTypes.perl Wed Jul 13 17:00:22 2005
3	@@ -177,7 +177,7 @@
4	# you can remove or comment out this line when you are satisfied with
5	# your customized version of this file.
6
7	-die "You must edit determineReadTypes.perl--please read README.txt that came with consed. Look under INSTALLING CONSED. Also look at the comments at the beginning of determineReadTypes.perl Then, and only then, comment out the line in determineReadTypes.perl that begins with \"die\" and has this error message\n by putting a # in front of that line";
8	+#die "You must edit determineReadTypes.perl--please read README.txt that came with consed. Look under INSTALLING CONSED. Also look at the comments at the beginning of determineReadTypes.perl Then, and only then, comment out the line in determineReadTypes.perl that begins with \"die\" and has this error message\n by putting a # in front of that line";
9
10	$szVersion = "001205";
11




--- scripts/phredPhrap.orig	2014-02-12 05:28:45.000000000 +0900
+++ scripts/phredPhrap	2014-06-22 03:07:33.000000000 +0900
@@ -217,7 +217,7 @@
 #$solexaDirPath = "../solexa_dir";
 #$sffDirPath = "../sff_dir";
 
 
 # change this to reflect wherever you put the phredpar.dat file
-$szPhredParameterFile = $szConsedHome . "/lib/phredpar.dat";
+$szPhredParameterFile = $szConsedHome . "/etc/PhredPar/phredpar.dat";
 #$szPhredParameterFile = "/usr/local/common/lib/PhredPar/phredpar.dat";
 #$szPhredParameterFile = "/usr/local/etc/PhredPar/phredpar.dat";
 
@@ -207,7 +207,7 @@
 $chromatDirPath = "../chromat_dir";
 $phdDirPath = "../phd_dir";
 
-$niceExe = "/bin/nice";
+$niceExe = "/usr/bin/nice";
 $mvExe = "/bin/mv";
 $lsExe = "/bin/ls";
 $pwdExe = "/bin/pwd";
@@ -568,11 +568,11 @@
 
 # only uncomment the following 4 lines when you have customized 
 # determineReadTypes.perl
-#print "\n\n--------------------------------------------------------\n";
-#print "Now running determineReadTypes.perl...\n";
-#print "--------------------------------------------------------\n\n\n";
+print "\n\n--------------------------------------------------------\n";
+print "Now running determineReadTypes.perl...\n";
+print "--------------------------------------------------------\n\n\n";
 
-#!system( "$determineReadTypes" ) || die "some problem running determineReadTypes.perl $!\n";
+!system( "$determineReadTypes" ) || die "some problem running determineReadTypes.perl $!\n";
 
 
 print "\n\n--------------------------------------------------------\n";




-----------------------------------------------------------------------------
CONSED installation directory: %%PREFIX%%/share/consed

  You must do either of following (see section 4.5 of README.txt):
  1) set CONSED_HOME environment variable to the location above
  2) make /usr/local/genome be a symlink targeting to the location above

Example files are installed not as world writable, which README.txt assumes.
So you must copy the files to anywhere you have writable permissions.

Now you can follow README.txt from section 4.12
-----------------------------------------------------------------------------




bin/ace2Fasta.perl
bin/ace2Oligos.perl
bin/ace2OligosWithComments.perl
bin/ace2fof
bin/aceContigs2Phds.perl
bin/acestatus.pl
bin/add454Reads.perl
bin/addReads2Consed.perl
bin/addSangerReads.perl
bin/addSolexaReads.perl
bin/alignRNA2Genomic.perl
bin/alignSolexaReads2Refs.perl
bin/amplifyTranscripts.perl
bin/bam2Ace.perl
bin/cons.perl
bin/consed
@mode 111
bin/consed_linux32bit
@mode
bin/countEditedBases.perl
bin/determineReadTypes.perl
bin/export_cons
bin/fasta2Ace.perl
bin/fasta2Phd.perl
bin/fasta2PhdBall.perl
bin/fastq2Phrap.perl
bin/filter454Reads.perl
bin/findSequenceMatchesForConsed.perl
bin/fixContigEnd.perl
bin/lib2Phd.perl
bin/makePhdBall.perl
bin/makeRegionsFile.perl
bin/mergeAces.perl
bin/mktrace
bin/orderPrimerPairs.perl
bin/phd2Ace.perl
bin/phd2fasta
bin/phredPhrap
bin/phredPhrap.orig
bin/phredPhrapWithPhdBalls
bin/recover_consensus_tags
bin/removeReads
bin/revertToUneditedRead
bin/revert_fof
bin/selectOneRegion.perl
bin/selectRegions.perl
bin/sff2phd.perl
bin/sff2phd_Samborskyy
bin/sff2scf
bin/sff2scfAndPhd
bin/sffinfo
bin/tagRepeats.perl
bin/testSocket.perl
bin/transferConsensusTags.perl
%%DATADIR%%/README.txt
%%DATADIR%%/bin
%%DATADIR%%/examples/454_newbler/edit_dir/454Contigs.ace.1
%%DATADIR%%/examples/454_newbler/edit_dir/454Contigs.ace.1.091026.110917.fasta
%%DATADIR%%/examples/454_newbler/edit_dir/454Contigs.ace.1.aview
%%DATADIR%%/examples/454_newbler/phdball_dir/phd.ball.1
%%DATADIR%%/examples/454_newbler/sff_dir/pairedreads.sff
%%DATADIR%%/examples/align454reads/edit_dir/reference.fa
%%DATADIR%%/examples/align454reads/edit_dir/sff.fof
%%DATADIR%%/examples/align454reads/sff_dir/newreads.sff
%%DATADIR%%/examples/align454reads/sff_dir/reads.sff
%%DATADIR%%/examples/align454reads_answer/edit_dir/reference.ace
%%DATADIR%%/examples/align454reads_answer/edit_dir/reference.ace.1
%%DATADIR%%/examples/align454reads_answer/edit_dir/reference.fa
%%DATADIR%%/examples/align454reads_answer/edit_dir/sff.fof
%%DATADIR%%/examples/align454reads_answer/phdball_dir/phd.ball.1
%%DATADIR%%/examples/align454reads_answer/phdball_dir/phd.ball.2
%%DATADIR%%/examples/align454reads_answer/phdball_dir/phd.ball.3
%%DATADIR%%/examples/align454reads_answer/sff_dir/newreads.sff
%%DATADIR%%/examples/align454reads_answer/sff_dir/reads.sff
%%DATADIR%%/examples/assembly_view/edit_dir/.consedrc_mini
%%DATADIR%%/examples/assembly_view/edit_dir/assembly_view.030319.170348.fasta
%%DATADIR%%/examples/assembly_view/edit_dir/assembly_view.030319.170348.fasta.log
%%DATADIR%%/examples/assembly_view/edit_dir/assembly_view.fasta.screen.ace.1
%%DATADIR%%/examples/assembly_view/edit_dir/assembly_view.fasta.screen.ace.1.aview
%%DATADIR%%/examples/assembly_view/edit_dir/doNotShowInAssemblyView.fof
%%DATADIR%%/examples/assembly_view/edit_dir/fragSizes.txt
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q102.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q124.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q124.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q126.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q126.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q131.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q131.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q134.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q144.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q144.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q148.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q148.x1r1p24_e150.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q148.x1u1_e133.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q148.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q149.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q149.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q156.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q161.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q161.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q192.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q192.x1r1p30_e173.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q192.x1r1p33_e178.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q192.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q203.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q203.x1r2p46_e234.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q203.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q206.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q206.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q207.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q207.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q210.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q211.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q212.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q212.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q215.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q215.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q232.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q243.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q243.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q247.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q265.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q267.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q267.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q270.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q270.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q277.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q277.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q279.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q282.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q282.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q287.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q287.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q293.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q293.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q305.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q307.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q307.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q322.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q351.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q351.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q352.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q352.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q362.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q362.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q363.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q370.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q378.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q378.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q379.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q379.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q381.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q381.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q403.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q403.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q405.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q405.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q407.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q407.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q409.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q409.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q415.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q415.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q423.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q423.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q426.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q426.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q427.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q441.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q441.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q444.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q444.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q452.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q452.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q469.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q469.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q472.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q472.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q474.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q474.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q479.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q479.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q482.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q482.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q488.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q488.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q494.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp02q494.x1r1p17_e87.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q210.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q220.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q222.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q222.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q226.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q233.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q240.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q245.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q251.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q251.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q256.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q256.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q266.x1r1p14_e79.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q266.y1u1_e195.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q266.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q268.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q268.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q275.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q275.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q283.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q288.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q288.y3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q307.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q312.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q318.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q329.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q330.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q330.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q335.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q335.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q350.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q350.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q357.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q357.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q364.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q364.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q364.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q368.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q380.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q380.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q380.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q387.x4.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q387.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q393.x5.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp03q393.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q104.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q104.y1u1_e134.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q104.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q110.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q110.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q112.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q112.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q136.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q136.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q137.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q137.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q138.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q138.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q141.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q142.x1u2_e247.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q142.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q145.x1r1p12_e70.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q145.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q145.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q155.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q155.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q171.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q171.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q179.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q180.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q180.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q202.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q206.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q206.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q207.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q207.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q214.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q214.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q219.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q219.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q222.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q222.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q224.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q234.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q237.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q239.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q239.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q241.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q241.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q246.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q246.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q254.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q257.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q257.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q260.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q260.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q295.y1u1_e21.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q317.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q317.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q328.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q331.x1u1_e146.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q331.y1u1_e137.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q331.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q332.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q339.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q343.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q347.y1u1_e193.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q347.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q350.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q372.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q375.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q385.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q390.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q409.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q422.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q429.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q429.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q451.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q451.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q458.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q458.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q464.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q472.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a1_fp04q483.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q105.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q108.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q108.x1r1p12_e69.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q108.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q116.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q116.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q116.y1u1_e143.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q117.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q117.x1r2p51_e249.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q117.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q127.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q127.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q150.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q150.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q152.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q152.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q167.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q167.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q178.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q187.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q187.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q189.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q201.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q201.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q208.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q210.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q210.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q217.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q217.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q219.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q219.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q220.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q220.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q226.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q226.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q227.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q227.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q233.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q233.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q246.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q246.y1u1_e75.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q263.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q263.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q268.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q268.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q268.y1u1_e65.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q273.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q273.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q283.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q283.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q284.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q286.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q334.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q334.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q339.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q339.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q345.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q345.y1u1_e139.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q345.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q348.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q348.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q363.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q365.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q365.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q367.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q367.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q374.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q374.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q379.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q379.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q390.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q390.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q404.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q404.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q405.x1u1_e61.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q405.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q405.y1u1_e62.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q405.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q409.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q409.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q420.x1u1_e136.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q420.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q420.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q421.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q421.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q424.x1u1_e80.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q424.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q424.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q425.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q425.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q441.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q441.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q443.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q443.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q453.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q453.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q455.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q455.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q461.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q461.y1u1_e135.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q461.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q464.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q464.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q471.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q471.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q474.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q474.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q477.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q477.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q480.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q480.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q482.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q482.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q484.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q484.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q485.x3.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp01q485.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q105.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q105.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q107.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q107.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q110.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q110.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q112.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q112.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q124.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q124.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q126.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q126.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q134.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q134.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q143.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q144.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q145.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q145.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q147.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q147.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q150.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q150.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q161.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q165.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q173.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q173.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q175.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q175.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q177.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q177.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q187.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q187.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q188.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q189.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q189.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q209.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q210.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q210.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q214.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q222.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q222.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q231.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q231.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q234.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q234.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q238.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q238.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q240.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q240.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q242.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q242.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q243.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q243.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q248.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q248.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q250.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q253.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q253.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q264.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q264.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q266.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q266.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q268.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q268.x1u1_e131.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q268.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q273.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q289.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q290.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q290.x1r2p46_e235.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q290.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q291.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q291.x1r1p25_e153.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q291.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q291.y1u1_e142.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q294.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q295.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q309.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q309.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q314.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q314.y1u1_e64.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q319.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q319.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q321.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q321.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q331.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q336.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q336.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q344.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q344.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q347.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q349.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q349.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q354.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q354.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q358.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q358.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q359.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q359.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q360.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q360.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q363.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q369.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q369.x1r2p51_e248.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q369.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q370.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q370.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q375.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q375.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q381.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q381.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q386.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q386.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q388.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q388.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q419.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q419.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q425.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q425.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q427.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q427.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q428.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q428.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q430.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q430.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q435.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q435.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q438.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q438.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q440.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q440.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q444.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q444.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q445.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q445.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q445.y1u1_e140.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q446.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q446.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q451.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q451.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q464.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q464.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q465.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q465.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q475.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q475.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q480.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q480.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q483.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q483.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q488.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q488.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp02q494.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q102.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q104.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q107.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q108.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q112.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q119.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q126.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q127.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q127.x1u1_e132.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q127.y1u1_e129.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q133.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q136.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q138.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q138.y1u1_e128.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q146.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q152.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q153.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q156.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q159.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q161.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q164.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q171.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q172.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q173.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q177.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q177.x1r2p62_e291.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q177.y1u2_e289.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q183.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q187.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q189.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q210.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q210.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q211.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q211.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q212.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q212.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q216.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q216.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q218.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q218.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q218.y1u1_e138.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q225.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q225.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q227.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q227.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q229.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q238.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q238.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q238.y1u1_e67.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q275.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q275.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q280.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q280.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q284.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q284.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q286.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q286.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q287.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q287.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q293.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q293.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q303.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q306.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q315.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q338.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q338.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q341.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q341.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q342.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q342.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q342.y1u1_e66.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q343.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q343.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q344.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q344.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q346.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q346.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q349.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q349.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q350.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q350.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q355.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q355.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q368.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q368.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q368.y1u1_e81.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q370.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q370.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q372.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q372.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q376.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q376.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q378.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q378.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q379.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q379.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q380.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q382.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q382.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q383.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q383.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q386.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q386.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q392.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q392.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q403.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q403.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q404.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q404.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q405.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q405.x1u1_e130.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q405.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q407.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q407.x1u1_e182.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q409.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q409.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q413.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q413.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q415.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q415.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q416.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q418.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q418.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q419.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q419.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q423.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q423.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q432.y1u2_e254.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q433.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q433.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q436.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q436.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q437.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q437.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q445.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q445.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q455.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q455.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q457.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q457.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q459.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q459.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q462.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q462.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q465.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q465.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q469.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q474.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q474.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q483.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q483.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q485.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q485.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q488.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q489.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q489.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q493.x1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q493.x1r1p28_e160.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp03q493.y1.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q103.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q103.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q107.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q107.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q114.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q114.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q121.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q121.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q122.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q122.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q125.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q125.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q132.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q132.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q133.x1u1_e141.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q133.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q133.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q142.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q142.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q146.x1r1p15_e83.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q146.x1u1_e82.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q146.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q146.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q149.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q149.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q151.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q151.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q160.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q160.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q166.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q166.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q169.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q169.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q170.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q170.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q171.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q171.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q172.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q172.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q175.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q182.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q182.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q202.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q202.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q210.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q210.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q211.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q211.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q216.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q216.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q219.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q219.y1u1_e145.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q219.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q226.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q229.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q229.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q234.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q234.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q243.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q243.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q253.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q253.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q256.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q256.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q265.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q265.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q273.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q273.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q274.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q274.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q282.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q282.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q286.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q286.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q291.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q293.x2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q293.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q294.y2.phd.1
%%DATADIR%%/examples/assembly_view/phd_dir/djs736a2_fp04q296.y2.phd.1
%%DATADIR%%/examples/autoPCRAmplify/brian.fa
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.ace
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.ace.081205.113938.out
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.fasta
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.primers.cross
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.primers.fasta
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/AC004019.C22.4.mRNA.primerRegion.primers.fasta.log
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/autoPCRAmplify.fof
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir/autoPCRAmplify.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/phd_dir/AC004019.C22.4.mRNA.primerRegion.phd.1
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.ace
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.ace.081205.113938.out
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.fasta
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.primers.cross
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.primers.fasta
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/AP000527.C22.6.mRNA.primerRegion.primers.fasta.log
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/autoPCRAmplify.fof
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir/autoPCRAmplify.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/phd_dir/AP000527.C22.6.mRNA.primerRegion.phd.1
%%DATADIR%%/examples/autoPCRAmplify_answer/brian.fa
%%DATADIR%%/examples/autoPCRAmplify_answer/consedrc
%%DATADIR%%/examples/autoPCRAmplify_answer/failures.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/primers081205.fasta
%%DATADIR%%/examples/autoPCRAmplify_answer/primers_sorted.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/primers_unsorted.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/primers_unsorted_shorter.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/to_order.txt
%%DATADIR%%/examples/autoPCRAmplify_answer/transcripts_filename.txt
%%DATADIR%%/examples/autofinish/edit_dir/.consedrc.bu
%%DATADIR%%/examples/autofinish/edit_dir/autoPCRAmplify.fof
%%DATADIR%%/examples/autofinish/edit_dir/autoPCRAmplify.txt
%%DATADIR%%/examples/autofinish/edit_dir/autoPCRAmplify2.txt
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.contigs
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.contigs.log
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.log
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.ace.1
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.contigs
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.contigs.qual
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.log
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.problems
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.problems.qual
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.qual
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.singlets
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fasta.screen.view
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.fof
%%DATADIR%%/examples/autofinish/edit_dir/autofinish.newtags
%%DATADIR%%/examples/autofinish/edit_dir/autofinishNewChromats.fof
%%DATADIR%%/examples/autofinish/edit_dir/autofinish_to_alu.cross
%%DATADIR%%/examples/autofinish/edit_dir/librariesInfo.txt_hide
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1013.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1029.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1033.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1034.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1051.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1094.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1141.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1153.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1211.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1248.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1273.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1331.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1336.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1343.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1418.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1422.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_168.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1680.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1740.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1777.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1803.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1919.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_1929.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2019.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2078.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2083.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2116.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2151.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2222.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2273.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2282.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2338.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2346.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2390.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2417.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2436.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2529.s2.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2632.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2659.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2664.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2714.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2751.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2813.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2854.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2862.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2894.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2912.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2933.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_2949.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_3085.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_3196.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_331.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_426.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_433.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_434.s3.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_441.s3.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_474.s2.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_481.s2.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_523.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_539.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_560.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_671.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_671.s2.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_715.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_844.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_891.s1.phd.1
%%DATADIR%%/examples/autofinish/phd_dir/djs228_892.s1.phd.1
%%DATADIR%%/examples/bamScape/23.fa
%%DATADIR%%/examples/bamScape/bam2AceRegions.txt
%%DATADIR%%/examples/bamScape/bamScapeReference.fof
%%DATADIR%%/examples/bamScape/reads.sorted.bam
%%DATADIR%%/examples/bamScape/reads.sorted.bam.bai
%%DATADIR%%/examples/gene_track/chrF.fa
%%DATADIR%%/examples/gene_track/hgTablesFake.txt
%%DATADIR%%/examples/gene_track/with_scores.bed
%%DATADIR%%/examples/gene_track_answer/chrF.fa
%%DATADIR%%/examples/gene_track_answer/chrF_500/edit_dir/chrF_500.ace.1
%%DATADIR%%/examples/gene_track_answer/hgTablesFake.txt
%%DATADIR%%/examples/gene_track_answer/with_scores.bed
%%DATADIR%%/examples/illumina_paired/edit_dir/fastq.fof
%%DATADIR%%/examples/illumina_paired/edit_dir/ref.fa
%%DATADIR%%/examples/illumina_paired/solexa_dir/paired_illumina1.fq
%%DATADIR%%/examples/illumina_paired/solexa_dir/paired_illumina2.fq
%%DATADIR%%/examples/illumina_paired_answer/edit_dir/fastq.fof
%%DATADIR%%/examples/illumina_paired_answer/edit_dir/ref.ace
%%DATADIR%%/examples/illumina_paired_answer/edit_dir/ref.ace.1
%%DATADIR%%/examples/illumina_paired_answer/edit_dir/ref.fa
%%DATADIR%%/examples/illumina_paired_answer/phdball_dir/phd.ball.1
%%DATADIR%%/examples/illumina_paired_answer/phdball_dir/phd.ball.2
%%DATADIR%%/examples/illumina_paired_answer/solexa_dir/paired_illumina1.fq
%%DATADIR%%/examples/illumina_paired_answer/solexa_dir/paired_illumina2.fq
%%DATADIR%%/examples/polyphred/chromat_dir/ca-21.s
%%DATADIR%%/examples/polyphred/chromat_dir/ca-22.r
%%DATADIR%%/examples/polyphred/chromat_dir/ca-22.s
%%DATADIR%%/examples/polyphred/chromat_dir/ca-23.s
%%DATADIR%%/examples/polyphred/chromat_dir/ca-9.r
%%DATADIR%%/examples/polyphred/chromat_dir/ca-9.s
%%DATADIR%%/examples/polyphred/chromat_dir/va-1.x
%%DATADIR%%/examples/polyphred/chromat_dir/va-13.x
%%DATADIR%%/examples/polyphred/chromat_dir/va-16.x
%%DATADIR%%/examples/polyphred/chromat_dir/va-23.x
%%DATADIR%%/examples/polyphred/edit_dir/core
%%DATADIR%%/examples/polyphred/edit_dir/example2.contigs
%%DATADIR%%/examples/polyphred/edit_dir/example2.contigs.log
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.log
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.ace.1
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.contigs
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.contigs.qual
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.log
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.polyphred.out
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.qual
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.singlets
%%DATADIR%%/examples/polyphred/edit_dir/example2.fasta.screen.view
%%DATADIR%%/examples/polyphred/edit_dir/example2.newtags
%%DATADIR%%/examples/polyphred/edit_dir/example2.phrap.out
%%DATADIR%%/examples/polyphred/edit_dir/example2.screen.out
%%DATADIR%%/examples/polyphred/edit_dir/example2_to_alu.cross
%%DATADIR%%/examples/polyphred/edit_dir/phd.fof
%%DATADIR%%/examples/polyphred/edit_dir/problem_reads
%%DATADIR%%/examples/polyphred/edit_dir/problem_reads.qual
%%DATADIR%%/examples/polyphred/phd_dir/ca-21.s.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/ca-22.r.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/ca-22.s.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/ca-23.s.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/ca-9.r.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/ca-9.s.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/va-1.x.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/va-13.x.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/va-16.x.phd.1
%%DATADIR%%/examples/polyphred/phd_dir/va-23.x.phd.1
%%DATADIR%%/examples/polyphred/poly_dir/ca-21.s.poly
%%DATADIR%%/examples/polyphred/poly_dir/ca-22.r.poly
%%DATADIR%%/examples/polyphred/poly_dir/ca-22.s.poly
%%DATADIR%%/examples/polyphred/poly_dir/ca-23.s.poly
%%DATADIR%%/examples/polyphred/poly_dir/ca-9.r.poly
%%DATADIR%%/examples/polyphred/poly_dir/ca-9.s.poly
%%DATADIR%%/examples/polyphred/poly_dir/va-1.x.poly
%%DATADIR%%/examples/polyphred/poly_dir/va-13.x.poly
%%DATADIR%%/examples/polyphred/poly_dir/va-16.x.poly
%%DATADIR%%/examples/polyphred/poly_dir/va-23.x.poly
%%DATADIR%%/examples/selectRegions/edit_dir/ref.fa
%%DATADIR%%/examples/selectRegions/edit_dir/refs.fof
%%DATADIR%%/examples/selectRegions/edit_dir/regions.txt
%%DATADIR%%/examples/selectRegions/edit_dir/solexa_files.fof
%%DATADIR%%/examples/selectRegions/solexa_dir/solexa_reads.fastq
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/alignmentFile.081126_161722.cross.0
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/my_alignments.fof
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/my_new_ace.ace.1
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/my_new_ace.ace.2
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/newAceFile.fof
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/ref.fa
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/refs.fof
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/regions.txt
%%DATADIR%%/examples/selectRegionsAnswer/edit_dir/solexa_files.fof
%%DATADIR%%/examples/selectRegionsAnswer/phdball_dir/phd.ball.1
%%DATADIR%%/examples/selectRegionsAnswer/phdball_dir/phd.ball.2
%%DATADIR%%/examples/selectRegionsAnswer/phdball_dir/phd.ball.3
%%DATADIR%%/examples/selectRegionsAnswer/solexa_dir/solexa_reads.fastq
%%DATADIR%%/examples/solexa_example/edit_dir/ref.fa
%%DATADIR%%/examples/solexa_example/edit_dir/solexa_files.fof
%%DATADIR%%/examples/solexa_example/solexa_dir/solexa_reads.fastq
%%DATADIR%%/examples/solexa_example_answer/edit_dir/ref.ace
%%DATADIR%%/examples/solexa_example_answer/edit_dir/ref.ace.1
%%DATADIR%%/examples/solexa_example_answer/edit_dir/ref.fa
%%DATADIR%%/examples/solexa_example_answer/edit_dir/solexa_files.fof
%%DATADIR%%/examples/solexa_example_answer/phdball_dir/phd.ball.1
%%DATADIR%%/examples/solexa_example_answer/phdball_dir/phd.ball.2
%%DATADIR%%/examples/solexa_example_answer/solexa_dir/solexa_reads.fastq
%%DATADIR%%/examples/standard/chromat_dir/djs74-1180.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1432.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1532.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1802.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1803.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1861.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-1871.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2231.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2350.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2361.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-237.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2516.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2664.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2679.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2689.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-2931.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-3174.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-423.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-561.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-564.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-690.x1
%%DATADIR%%/examples/standard/chromat_dir/djs74-824.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-932.s1
%%DATADIR%%/examples/standard/chromat_dir/djs74-996.s2
%%DATADIR%%/examples/standard/chromats_to_add/djs74-1455.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-1465.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-2282.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-2712.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-2861.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-536.s2
%%DATADIR%%/examples/standard/chromats_to_add/djs74-568.s1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-649.x1
%%DATADIR%%/examples/standard/chromats_to_add/djs74-867.s1
%%DATADIR%%/examples/standard/edit_dir/custom_navigation.nav
%%DATADIR%%/examples/standard/edit_dir/fragSizes.txt
%%DATADIR%%/examples/standard/edit_dir/reads_to_add.fof
%%DATADIR%%/examples/standard/edit_dir/reads_to_add_to_regions.fof
%%DATADIR%%/examples/standard/edit_dir/reads_to_remove.fof
%%DATADIR%%/examples/standard/edit_dir/standard.030328.142354.fasta
%%DATADIR%%/examples/standard/edit_dir/standard.030328.142354.fasta.log
%%DATADIR%%/examples/standard/edit_dir/standard.contigs
%%DATADIR%%/examples/standard/edit_dir/standard.contigs.log
%%DATADIR%%/examples/standard/edit_dir/standard.fasta
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.log
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.ace.1
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.ace.1.aview
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.contigs
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.contigs.qual
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.log
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.problems
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.problems.qual
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.qual
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.singlets
%%DATADIR%%/examples/standard/edit_dir/standard.fasta.screen.view
%%DATADIR%%/examples/standard/edit_dir/standard.newtags
%%DATADIR%%/examples/standard/edit_dir/standard.phrap.out
%%DATADIR%%/examples/standard/edit_dir/standard.screen.out
%%DATADIR%%/examples/standard/edit_dir/standardNewChromats.fof
%%DATADIR%%/examples/standard/edit_dir/standard_to_alu.cross
%%DATADIR%%/examples/standard/edit_dir/wig_fixed.txt
%%DATADIR%%/examples/standard/phd_dir/djs74-1180.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1432.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1532.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1802.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1803.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1861.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-1871.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2231.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2350.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2361.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-237.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2516.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2664.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2679.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2689.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-2931.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-3174.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-423.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-423.s1.phd.2
%%DATADIR%%/examples/standard/phd_dir/djs74-561.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-564.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-690.x1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-824.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-932.s1.phd.1
%%DATADIR%%/examples/standard/phd_dir/djs74-996.s2.phd.1
%%DATADIR%%/lib/phredpar.dat
@sample %%DATADIR%%/lib/screenLibs/filter454Reads.fa.sample
@sample %%DATADIR%%/lib/screenLibs/primerCloneScreen.seq.sample
@sample %%DATADIR%%/lib/screenLibs/primerSubcloneScreen.seq.sample
@sample %%DATADIR%%/lib/screenLibs/repeats.fasta.sample
@sample %%DATADIR%%/lib/screenLibs/sffLinkers.fa.sample
@sample %%DATADIR%%/lib/screenLibs/singleVectorForRestrictionDigest.fasta.sample
@sample %%DATADIR%%/lib/screenLibs/vector.seq.sample
@dirrmtry %%DATADIR%%/examples/454_newbler/chromat_dir
@dirrmtry %%DATADIR%%/examples/454_newbler/edit_dir
@dirrmtry %%DATADIR%%/examples/454_newbler/phd_dir
@dirrmtry %%DATADIR%%/examples/454_newbler/phdball_dir
@dirrmtry %%DATADIR%%/examples/454_newbler/sff_dir
@dirrmtry %%DATADIR%%/examples/454_newbler
@dirrmtry %%DATADIR%%/examples/align454reads/chromat_dir
@dirrmtry %%DATADIR%%/examples/align454reads/edit_dir
@dirrmtry %%DATADIR%%/examples/align454reads/phd_dir
@dirrmtry %%DATADIR%%/examples/align454reads/phdball_dir
@dirrmtry %%DATADIR%%/examples/align454reads/sff_dir
@dirrmtry %%DATADIR%%/examples/align454reads
@dirrmtry %%DATADIR%%/examples/align454reads_answer/chromat_dir
@dirrmtry %%DATADIR%%/examples/align454reads_answer/edit_dir
@dirrmtry %%DATADIR%%/examples/align454reads_answer/phd_dir
@dirrmtry %%DATADIR%%/examples/align454reads_answer/phdball_dir
@dirrmtry %%DATADIR%%/examples/align454reads_answer/sff_dir
@dirrmtry %%DATADIR%%/examples/align454reads_answer
@dirrmtry %%DATADIR%%/examples/assembly_view/chromat_dir
@dirrmtry %%DATADIR%%/examples/assembly_view/edit_dir
@dirrmtry %%DATADIR%%/examples/assembly_view/phd_dir
@dirrmtry %%DATADIR%%/examples/assembly_view
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/edit_dir
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion/phd_dir
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AC004019.C22.4.mRNA.primerRegion
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/edit_dir
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion/phd_dir
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer/AP000527.C22.6.mRNA.primerRegion
@dirrmtry %%DATADIR%%/examples/autoPCRAmplify_answer
@dirrmtry %%DATADIR%%/examples/autofinish/chromat_dir
@dirrmtry %%DATADIR%%/examples/autofinish/edit_dir
@dirrmtry %%DATADIR%%/examples/autofinish/phd_dir
@dirrmtry %%DATADIR%%/examples/autofinish
@dirrmtry %%DATADIR%%/examples/bamScape
@dirrmtry %%DATADIR%%/examples/gene_track
@dirrmtry %%DATADIR%%/examples/gene_track_answer/chrF_500/edit_dir
@dirrmtry %%DATADIR%%/examples/gene_track_answer/chrF_500/phdball_dir
@dirrmtry %%DATADIR%%/examples/gene_track_answer/chrF_500
@dirrmtry %%DATADIR%%/examples/gene_track_answer
@dirrmtry %%DATADIR%%/examples/illumina_paired/edit_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired/phdball_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired/solexa_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired
@dirrmtry %%DATADIR%%/examples/illumina_paired_answer/edit_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired_answer/phdball_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired_answer/solexa_dir
@dirrmtry %%DATADIR%%/examples/illumina_paired_answer
@dirrmtry %%DATADIR%%/examples/polyphred/chromat_dir
@dirrmtry %%DATADIR%%/examples/polyphred/edit_dir
@dirrmtry %%DATADIR%%/examples/polyphred/phd_dir
@dirrmtry %%DATADIR%%/examples/polyphred/poly_dir
@dirrmtry %%DATADIR%%/examples/polyphred
@dirrmtry %%DATADIR%%/examples/selectRegions/edit_dir
@dirrmtry %%DATADIR%%/examples/selectRegions/phd_dir
@dirrmtry %%DATADIR%%/examples/selectRegions/phdball_dir
@dirrmtry %%DATADIR%%/examples/selectRegions/solexa_dir
@dirrmtry %%DATADIR%%/examples/selectRegions
@dirrmtry %%DATADIR%%/examples/selectRegionsAnswer/edit_dir
@dirrmtry %%DATADIR%%/examples/selectRegionsAnswer/phdball_dir
@dirrmtry %%DATADIR%%/examples/selectRegionsAnswer/solexa_dir
@dirrmtry %%DATADIR%%/examples/selectRegionsAnswer
@dirrmtry %%DATADIR%%/examples/solexa_example/edit_dir
@dirrmtry %%DATADIR%%/examples/solexa_example/phd_dir
@dirrmtry %%DATADIR%%/examples/solexa_example/phdball_dir
@dirrmtry %%DATADIR%%/examples/solexa_example/solexa_dir
@dirrmtry %%DATADIR%%/examples/solexa_example
@dirrmtry %%DATADIR%%/examples/solexa_example_answer/edit_dir
@dirrmtry %%DATADIR%%/examples/solexa_example_answer/phd_dir
@dirrmtry %%DATADIR%%/examples/solexa_example_answer/phdball_dir
@dirrmtry %%DATADIR%%/examples/solexa_example_answer/solexa_dir
@dirrmtry %%DATADIR%%/examples/solexa_example_answer
@dirrmtry %%DATADIR%%/examples/standard/chromat_dir
@dirrmtry %%DATADIR%%/examples/standard/chromats_to_add
@dirrmtry %%DATADIR%%/examples/standard/edit_dir
@dirrmtry %%DATADIR%%/examples/standard/phd_dir
@dirrmtry %%DATADIR%%/examples/standard
@dirrmtry %%DATADIR%%/examples
@dirrmtry %%DATADIR%%/lib/screenLibs
@dirrmtry %%DATADIR%%/lib
@dirrmtry %%DATADIR%%




share/examples/consed/assembly_view/edit_dir/.consedrc
share/examples/consed/assembly_view/edit_dir/.consedrc_mini
share/examples/consed/assembly_view/edit_dir/assembly_view.030319.170348.fasta
share/examples/consed/assembly_view/edit_dir/assembly_view.030319.170348.fasta.log
share/examples/consed/assembly_view/edit_dir/assembly_view.fasta.screen.ace.1
share/examples/consed/assembly_view/edit_dir/assembly_view.fasta.screen.ace.1.aview
share/examples/consed/assembly_view/edit_dir/doNotShowInAssemblyView.fof
share/examples/consed/assembly_view/edit_dir/fragSizes.txt
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q102.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q124.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q124.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q126.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q126.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q131.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q131.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q134.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q144.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q144.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q148.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q148.x1r1p24_e150.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q148.x1u1_e133.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q148.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q149.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q149.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q156.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q161.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q161.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q192.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q192.x1r1p30_e173.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q192.x1r1p33_e178.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q192.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q203.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q203.x1r2p46_e234.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q203.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q206.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q206.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q207.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q207.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q210.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q211.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q212.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q212.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q215.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q215.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q232.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q243.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q243.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q247.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q265.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q267.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q267.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q270.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q270.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q277.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q277.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q279.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q282.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q282.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q287.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q287.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q293.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q293.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q305.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q307.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q307.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q322.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q351.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q351.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q352.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q352.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q362.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q362.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q363.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q370.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q378.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q378.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q379.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q379.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q381.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q381.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q403.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q403.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q405.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q405.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q407.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q407.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q409.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q409.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q415.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q415.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q423.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q423.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q426.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q426.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q427.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q441.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q441.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q444.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q444.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q452.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q452.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q469.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q469.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q472.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q472.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q474.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q474.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q479.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q479.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q482.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q482.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q488.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q488.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q494.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp02q494.x1r1p17_e87.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q210.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q220.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q222.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q222.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q226.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q233.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q240.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q245.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q251.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q251.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q256.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q256.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q266.x1r1p14_e79.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q266.y1u1_e195.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q266.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q268.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q268.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q275.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q275.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q283.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q288.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q288.y3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q307.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q312.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q318.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q329.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q330.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q330.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q335.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q335.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q350.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q350.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q357.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q357.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q364.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q364.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q364.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q368.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q380.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q380.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q380.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q387.x4.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q387.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q393.x5.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp03q393.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q104.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q104.y1u1_e134.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q104.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q110.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q110.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q112.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q112.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q136.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q136.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q137.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q137.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q138.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q138.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q141.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q142.x1u2_e247.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q142.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q145.x1r1p12_e70.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q145.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q145.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q155.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q155.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q171.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q171.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q179.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q180.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q180.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q202.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q206.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q206.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q207.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q207.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q214.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q214.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q219.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q219.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q222.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q222.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q224.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q234.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q237.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q239.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q239.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q241.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q241.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q246.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q246.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q254.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q257.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q257.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q260.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q260.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q295.y1u1_e21.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q317.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q317.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q328.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q331.x1u1_e146.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q331.y1u1_e137.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q331.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q332.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q339.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q343.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q347.y1u1_e193.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q347.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q350.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q372.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q375.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q385.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q390.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q409.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q422.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q429.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q429.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q451.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q451.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q458.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q458.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q464.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q472.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a1_fp04q483.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q105.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q108.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q108.x1r1p12_e69.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q108.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q116.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q116.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q116.y1u1_e143.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q117.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q117.x1r2p51_e249.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q117.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q127.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q127.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q150.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q150.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q152.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q152.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q167.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q167.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q178.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q187.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q187.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q189.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q201.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q201.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q208.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q210.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q210.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q217.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q217.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q219.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q219.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q220.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q220.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q226.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q226.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q227.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q227.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q233.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q233.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q246.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q246.y1u1_e75.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q263.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q263.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q268.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q268.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q268.y1u1_e65.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q273.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q273.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q283.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q283.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q284.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q286.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q334.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q334.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q339.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q339.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q345.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q345.y1u1_e139.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q345.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q348.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q348.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q363.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q365.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q365.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q367.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q367.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q374.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q374.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q379.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q379.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q390.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q390.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q404.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q404.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q405.x1u1_e61.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q405.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q405.y1u1_e62.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q405.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q409.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q409.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q420.x1u1_e136.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q420.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q420.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q421.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q421.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q424.x1u1_e80.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q424.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q424.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q425.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q425.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q441.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q441.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q443.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q443.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q453.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q453.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q455.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q455.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q461.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q461.y1u1_e135.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q461.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q464.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q464.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q471.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q471.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q474.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q474.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q477.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q477.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q480.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q480.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q482.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q482.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q484.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q484.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q485.x3.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp01q485.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q105.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q105.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q107.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q107.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q110.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q110.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q112.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q112.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q124.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q124.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q126.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q126.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q134.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q134.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q143.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q144.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q145.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q145.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q147.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q147.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q150.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q150.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q161.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q165.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q173.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q173.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q175.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q175.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q177.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q177.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q187.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q187.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q188.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q189.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q189.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q209.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q210.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q210.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q214.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q222.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q222.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q231.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q231.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q234.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q234.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q238.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q238.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q240.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q240.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q242.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q242.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q243.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q243.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q248.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q248.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q250.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q253.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q253.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q264.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q264.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q266.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q266.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q268.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q268.x1u1_e131.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q268.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q273.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q289.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q290.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q290.x1r2p46_e235.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q290.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q291.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q291.x1r1p25_e153.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q291.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q291.y1u1_e142.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q294.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q295.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q309.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q309.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q314.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q314.y1u1_e64.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q319.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q319.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q321.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q321.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q331.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q336.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q336.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q344.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q344.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q347.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q349.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q349.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q354.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q354.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q358.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q358.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q359.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q359.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q360.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q360.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q363.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q369.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q369.x1r2p51_e248.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q369.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q370.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q370.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q375.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q375.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q381.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q381.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q386.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q386.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q388.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q388.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q419.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q419.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q425.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q425.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q427.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q427.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q428.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q428.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q430.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q430.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q435.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q435.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q438.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q438.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q440.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q440.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q444.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q444.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q445.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q445.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q445.y1u1_e140.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q446.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q446.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q451.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q451.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q464.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q464.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q465.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q465.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q475.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q475.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q480.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q480.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q483.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q483.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q488.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q488.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp02q494.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q102.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q104.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q107.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q108.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q112.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q119.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q126.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q127.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q127.x1u1_e132.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q127.y1u1_e129.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q133.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q136.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q138.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q138.y1u1_e128.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q146.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q152.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q153.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q156.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q159.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q161.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q164.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q171.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q172.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q173.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q177.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q177.x1r2p62_e291.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q177.y1u2_e289.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q183.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q187.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q189.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q210.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q210.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q211.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q211.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q212.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q212.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q216.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q216.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q218.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q218.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q218.y1u1_e138.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q225.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q225.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q227.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q227.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q229.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q238.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q238.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q238.y1u1_e67.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q275.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q275.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q280.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q280.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q284.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q284.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q286.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q286.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q287.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q287.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q293.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q293.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q303.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q306.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q315.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q338.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q338.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q341.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q341.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q342.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q342.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q342.y1u1_e66.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q343.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q343.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q344.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q344.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q346.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q346.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q349.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q349.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q350.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q350.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q355.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q355.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q368.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q368.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q368.y1u1_e81.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q370.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q370.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q372.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q372.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q376.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q376.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q378.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q378.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q379.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q379.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q380.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q382.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q382.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q383.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q383.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q386.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q386.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q392.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q392.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q403.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q403.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q404.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q404.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q405.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q405.x1u1_e130.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q405.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q407.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q407.x1u1_e182.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q409.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q409.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q413.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q413.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q415.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q415.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q416.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q418.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q418.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q419.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q419.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q423.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q423.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q432.y1u2_e254.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q433.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q433.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q436.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q436.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q437.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q437.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q445.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q445.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q455.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q455.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q457.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q457.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q459.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q459.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q462.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q462.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q465.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q465.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q469.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q474.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q474.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q483.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q483.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q485.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q485.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q488.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q489.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q489.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q493.x1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q493.x1r1p28_e160.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp03q493.y1.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q103.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q103.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q107.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q107.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q114.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q114.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q121.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q121.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q122.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q122.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q125.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q125.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q132.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q132.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q133.x1u1_e141.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q133.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q133.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q142.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q142.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q146.x1r1p15_e83.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q146.x1u1_e82.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q146.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q146.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q149.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q149.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q151.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q151.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q160.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q160.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q166.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q166.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q169.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q169.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q170.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q170.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q171.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q171.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q172.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q172.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q175.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q182.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q182.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q202.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q202.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q210.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q210.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q211.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q211.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q216.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q216.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q219.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q219.y1u1_e145.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q219.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q226.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q229.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q229.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q234.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q234.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q243.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q243.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q253.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q253.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q256.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q256.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q265.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q265.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q273.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q273.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q274.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q274.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q282.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q282.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q286.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q286.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q291.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q293.x2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q293.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q294.y2.phd.1
share/examples/consed/assembly_view/phd_dir/djs736a2_fp04q296.y2.phd.1
share/examples/consed/autofinish/edit_dir/.consedrc.bu
share/examples/consed/autofinish/edit_dir/autoPCRAmplify.fof
share/examples/consed/autofinish/edit_dir/autoPCRAmplify.txt
share/examples/consed/autofinish/edit_dir/autoPCRAmplify2.txt
share/examples/consed/autofinish/edit_dir/autofinish.contigs
share/examples/consed/autofinish/edit_dir/autofinish.contigs.log
share/examples/consed/autofinish/edit_dir/autofinish.fasta
share/examples/consed/autofinish/edit_dir/autofinish.fasta.log
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.ace.1
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.contigs
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.contigs.qual
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.log
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.problems
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.problems.qual
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.qual
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.singlets
share/examples/consed/autofinish/edit_dir/autofinish.fasta.screen.view
share/examples/consed/autofinish/edit_dir/autofinish.fof
share/examples/consed/autofinish/edit_dir/autofinish.newtags
share/examples/consed/autofinish/edit_dir/autofinishNewChromats.fof
share/examples/consed/autofinish/edit_dir/autofinish_to_alu.cross
share/examples/consed/autofinish/edit_dir/librariesInfo.txt_hide
share/examples/consed/autofinish/phd_dir/djs228_1013.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1029.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1033.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1034.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1051.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1094.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1141.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1153.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1211.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1248.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1273.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1331.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1336.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1343.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1418.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1422.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_168.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1680.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1740.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1777.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1803.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1919.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_1929.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2019.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2078.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2083.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2116.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2151.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2222.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2273.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2282.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2338.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2346.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2390.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2417.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2436.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2529.s2.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2632.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2659.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2664.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2714.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2751.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2813.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2854.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2862.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2894.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2912.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2933.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_2949.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_3085.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_3196.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_331.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_426.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_433.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_434.s3.phd.1
share/examples/consed/autofinish/phd_dir/djs228_441.s3.phd.1
share/examples/consed/autofinish/phd_dir/djs228_474.s2.phd.1
share/examples/consed/autofinish/phd_dir/djs228_481.s2.phd.1
share/examples/consed/autofinish/phd_dir/djs228_523.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_539.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_560.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_671.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_671.s2.phd.1
share/examples/consed/autofinish/phd_dir/djs228_715.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_844.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_891.s1.phd.1
share/examples/consed/autofinish/phd_dir/djs228_892.s1.phd.1
share/examples/consed/polyphred/chromat_dir/ca-21.s
share/examples/consed/polyphred/chromat_dir/ca-22.r
share/examples/consed/polyphred/chromat_dir/ca-22.s
share/examples/consed/polyphred/chromat_dir/ca-23.s
share/examples/consed/polyphred/chromat_dir/ca-9.r
share/examples/consed/polyphred/chromat_dir/ca-9.s
share/examples/consed/polyphred/chromat_dir/va-1.x
share/examples/consed/polyphred/chromat_dir/va-13.x
share/examples/consed/polyphred/chromat_dir/va-16.x
share/examples/consed/polyphred/chromat_dir/va-23.x
share/examples/consed/polyphred/edit_dir/core
share/examples/consed/polyphred/edit_dir/example2.contigs
share/examples/consed/polyphred/edit_dir/example2.contigs.log
share/examples/consed/polyphred/edit_dir/example2.fasta
share/examples/consed/polyphred/edit_dir/example2.fasta.log
share/examples/consed/polyphred/edit_dir/example2.fasta.screen
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.ace.1
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.contigs
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.contigs.qual
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.log
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.polyphred.out
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.qual
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.singlets
share/examples/consed/polyphred/edit_dir/example2.fasta.screen.view
share/examples/consed/polyphred/edit_dir/example2.newtags
share/examples/consed/polyphred/edit_dir/example2.phrap.out
share/examples/consed/polyphred/edit_dir/example2.screen.out
share/examples/consed/polyphred/edit_dir/example2_to_alu.cross
share/examples/consed/polyphred/edit_dir/phd.fof
share/examples/consed/polyphred/edit_dir/problem_reads
share/examples/consed/polyphred/edit_dir/problem_reads.qual
share/examples/consed/polyphred/phd_dir/ca-21.s.phd.1
share/examples/consed/polyphred/phd_dir/ca-22.r.phd.1
share/examples/consed/polyphred/phd_dir/ca-22.s.phd.1
share/examples/consed/polyphred/phd_dir/ca-23.s.phd.1
share/examples/consed/polyphred/phd_dir/ca-9.r.phd.1
share/examples/consed/polyphred/phd_dir/ca-9.s.phd.1
share/examples/consed/polyphred/phd_dir/va-1.x.phd.1
share/examples/consed/polyphred/phd_dir/va-13.x.phd.1
share/examples/consed/polyphred/phd_dir/va-16.x.phd.1
share/examples/consed/polyphred/phd_dir/va-23.x.phd.1
share/examples/consed/polyphred/poly_dir/ca-21.s.poly
share/examples/consed/polyphred/poly_dir/ca-22.r.poly
share/examples/consed/polyphred/poly_dir/ca-22.s.poly
share/examples/consed/polyphred/poly_dir/ca-23.s.poly
share/examples/consed/polyphred/poly_dir/ca-9.r.poly
share/examples/consed/polyphred/poly_dir/ca-9.s.poly
share/examples/consed/polyphred/poly_dir/va-1.x.poly
share/examples/consed/polyphred/poly_dir/va-13.x.poly
share/examples/consed/polyphred/poly_dir/va-16.x.poly
share/examples/consed/polyphred/poly_dir/va-23.x.poly
share/examples/consed/standard/chromat_dir/djs74-1180.s1
share/examples/consed/standard/chromat_dir/djs74-1432.s1
share/examples/consed/standard/chromat_dir/djs74-1532.s1
share/examples/consed/standard/chromat_dir/djs74-1802.s1
share/examples/consed/standard/chromat_dir/djs74-1803.s1
share/examples/consed/standard/chromat_dir/djs74-1861.s1
share/examples/consed/standard/chromat_dir/djs74-1871.s1
share/examples/consed/standard/chromat_dir/djs74-2231.s1
share/examples/consed/standard/chromat_dir/djs74-2350.s1
share/examples/consed/standard/chromat_dir/djs74-2361.s1
share/examples/consed/standard/chromat_dir/djs74-237.s1
share/examples/consed/standard/chromat_dir/djs74-2516.s1
share/examples/consed/standard/chromat_dir/djs74-2664.s1
share/examples/consed/standard/chromat_dir/djs74-2679.s1
share/examples/consed/standard/chromat_dir/djs74-2689.s1
share/examples/consed/standard/chromat_dir/djs74-2931.s1
share/examples/consed/standard/chromat_dir/djs74-3174.s1
share/examples/consed/standard/chromat_dir/djs74-423.s1
share/examples/consed/standard/chromat_dir/djs74-561.s1
share/examples/consed/standard/chromat_dir/djs74-564.s1
share/examples/consed/standard/chromat_dir/djs74-690.x1
share/examples/consed/standard/chromat_dir/djs74-824.s1
share/examples/consed/standard/chromat_dir/djs74-932.s1
share/examples/consed/standard/chromat_dir/djs74-996.s2
share/examples/consed/standard/chromats_to_add/djs74-1455.s1
share/examples/consed/standard/chromats_to_add/djs74-1465.s1
share/examples/consed/standard/chromats_to_add/djs74-2282.s1
share/examples/consed/standard/chromats_to_add/djs74-2712.s1
share/examples/consed/standard/chromats_to_add/djs74-2861.s1
share/examples/consed/standard/chromats_to_add/djs74-536.s2
share/examples/consed/standard/chromats_to_add/djs74-568.s1
share/examples/consed/standard/chromats_to_add/djs74-649.x1
share/examples/consed/standard/chromats_to_add/djs74-867.s1
share/examples/consed/standard/edit_dir/custom_navigation.nav
share/examples/consed/standard/edit_dir/fragSizes.txt
share/examples/consed/standard/edit_dir/reads_to_add.fof
share/examples/consed/standard/edit_dir/reads_to_remove.fof
share/examples/consed/standard/edit_dir/standard.030328.142354.fasta
share/examples/consed/standard/edit_dir/standard.030328.142354.fasta.log
share/examples/consed/standard/edit_dir/standard.contigs
share/examples/consed/standard/edit_dir/standard.contigs.log
share/examples/consed/standard/edit_dir/standard.fasta
share/examples/consed/standard/edit_dir/standard.fasta.log
share/examples/consed/standard/edit_dir/standard.fasta.screen
share/examples/consed/standard/edit_dir/standard.fasta.screen.ace.1
share/examples/consed/standard/edit_dir/standard.fasta.screen.ace.1.aview
share/examples/consed/standard/edit_dir/standard.fasta.screen.contigs
share/examples/consed/standard/edit_dir/standard.fasta.screen.contigs.qual
share/examples/consed/standard/edit_dir/standard.fasta.screen.log
share/examples/consed/standard/edit_dir/standard.fasta.screen.problems
share/examples/consed/standard/edit_dir/standard.fasta.screen.problems.qual
share/examples/consed/standard/edit_dir/standard.fasta.screen.qual
share/examples/consed/standard/edit_dir/standard.fasta.screen.singlets
share/examples/consed/standard/edit_dir/standard.fasta.screen.view
share/examples/consed/standard/edit_dir/standard.newtags
share/examples/consed/standard/edit_dir/standard.phrap.out
share/examples/consed/standard/edit_dir/standard.screen.out
share/examples/consed/standard/edit_dir/standardNewChromats.fof
share/examples/consed/standard/edit_dir/standard_to_alu.cross
share/examples/consed/standard/phd_dir/djs74-1180.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1432.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1532.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1802.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1803.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1861.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-1871.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2231.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2350.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2361.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-237.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2516.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2664.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2679.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2689.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-2931.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-3174.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-423.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-423.s1.phd.2
share/examples/consed/standard/phd_dir/djs74-561.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-564.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-690.x1.phd.1
share/examples/consed/standard/phd_dir/djs74-824.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-932.s1.phd.1
share/examples/consed/standard/phd_dir/djs74-996.s2.phd.1
@dirrm share/examples/consed/assembly_view/chromat_dir
@dirrm share/examples/consed/assembly_view/edit_dir
@dirrm share/examples/consed/assembly_view/phd_dir
@dirrm share/examples/consed/assembly_view
@dirrm share/examples/consed/autofinish/chromat_dir
@dirrm share/examples/consed/autofinish/edit_dir
@dirrm share/examples/consed/autofinish/phd_dir
@dirrm share/examples/consed/autofinish
@dirrm share/examples/consed/polyphred/chromat_dir
@dirrm share/examples/consed/polyphred/edit_dir
@dirrm share/examples/consed/polyphred/phd_dir
@dirrm share/examples/consed/polyphred/poly_dir
@dirrm share/examples/consed/polyphred
@dirrm share/examples/consed/standard/chromat_dir
@dirrm share/examples/consed/standard/chromats_to_add
@dirrm share/examples/consed/standard/edit_dir
@dirrm share/examples/consed/standard/phd_dir
@dirrm share/examples/consed/standard
@dirrm share/examples/consed

Return to bug 191336

Lines 2-20 Link Here

(-)Makefile (-81 / +11 lines)
2	# $FreeBSD$	2	# $FreeBSD$
3		3
4	PORTNAME= consed	4	PORTNAME= consed
5	PORTVERSION= 16.0	5	PORTVERSION= 27.0
6	CATEGORIES= biology	6	CATEGORIES= biology
7	MASTER_SITES= http://www.phrap.org/consed/distributions/${PORTVERSION}/	7	MASTER_SITES= http://www.phrap.org/consed/distributions/${PORTVERSION}/
8	DISTNAME= ${PORTNAME}_linux	8	DISTNAME= ${PORTNAME}_linux
9	EXTRACT_SUFX= .tar.Z
10		9
11	MAINTAINER= mzaki@m.u-tokyo.ac.jp	10	MAINTAINER= mzaki@m.u-tokyo.ac.jp
12	COMMENT= Graphical tool for editing Phrap assemblies	11	COMMENT= Graphical tool for editing Phrap assemblies
13		12
14	RUN_DEPENDS= phred:${PORTSDIR}/biology/phred \	13	RUN_DEPENDS= phred:${PORTSDIR}/biology/phred \
15	phrap:${PORTSDIR}/biology/phrap \	14	phrap:${PORTSDIR}/biology/phrap
16	phd2fasta:${PORTSDIR}/biology/phd2fasta
17		15
		16	CONFLICTS_INSTALL= phd2fasta-[0-9]*
		17
		18	SUB_FILES= pkg-message
		19
18	USES= perl5	20	USES= perl5
19	USE_LINUX= yes	21	USE_LINUX= yes
20	USE_LINUX_APPS= xorglibs	22	USE_LINUX_APPS= xorglibs
Lines 26-109 Link Here
26	.endif	28	.endif
27		29
28	NO_WRKSUBDIR= yes	30	NO_WRKSUBDIR= yes
		31	NO_BUILD= yes
29		32
30	BUILD_WRKSRC= ${WRKSRC}/misc/mktrace
31	ALL_TARGET= mktrace
32
33	BINARIES= consed mktrace sffinfo sff2scf
34	CONTRIBS= ace2OligosWithComments.perl ace2fof \
35	aceContigs2Phds.perl acestatus.pl export_cons \
36	mergeAces.perl recover_consensus_tags revert_fof
37	SCRIPTS= ace2Fasta.perl ace2Oligos.perl addReads2Consed.perl \
38	amplifyTranscripts.perl catPhdFiles.perl \
39	countEditedBases.perl determineReadTypes.perl fasta2Phd.perl \
40	findSequenceMatchesForConsed.perl lib2Phd.perl \
41	orderPrimerPairs.perl phd2Ace.perl phredPhrap removeReads \
42	revertToUneditedRead tagRepeats.perl transferConsensusTags.perl
43	.for f in ${BINARIES} ${CONTRIBS} ${SCRIPTS}
44	PLIST_FILES+= bin/${f}
45	.endfor
46
47	DATADIR= ${PREFIX}/lib/screenLibs
48	DATAFILES= primerCloneScreen.seq primerSubcloneScreen.seq \
49	repeats.fasta singleVectorForRestrictionDigest.fasta
50	NULLFILES= vector.seq
51	.for f in ${DATAFILES} ${NULLFILES}
52	PORTDATA+= ${f}.dist
53	.endfor
54	PORTDOCS= README.txt
55
56	NO_STAGE= yes
57
58	OPTIONS_DEFINE= DOCS EXAMPLES
59
60	.include <bsd.port.options.mk>
61
62	.if ${PORT_OPTIONS:MEXAMPLES}
63	EXAMPLES= standard autofinish assembly_view polyphred
64	PLIST= ${PKGDIR}/pkg-plist.examples
65	.endif
66
67	post-build:
68	(cd ${WRKSRC}/misc/454; ${CC} ${CFLAGS} sffinfo.c -o sffinfo)
69	(cd ${WRKSRC}/misc/454; ${CC} ${CFLAGS} sff2scf.c -o sff2scf)
70
71	do-install:	33	do-install:
72	@${INSTALL_PROGRAM} ${WRKSRC}/consed_linux2.4 ${PREFIX}/bin/consed	34	${MKDIR} ${STAGEDIR}${DATADIR}
73	@${INSTALL_PROGRAM} ${BUILD_WRKSRC}/mktrace ${PREFIX}/bin/	35	${LN} -sf ../../bin ${STAGEDIR}${DATADIR}/bin
74	@${INSTALL_PROGRAM} ${WRKSRC}/misc/454/sffinfo ${PREFIX}/bin/	36	(cd ${WRKSRC}; ${ENV} CC=${CC} ./installConsed.perl consed_linux32bit ${STAGEDIR}${DATADIR})
75	@${INSTALL_PROGRAM} ${WRKSRC}/misc/454/sff2scf ${PREFIX}/bin/	37	${LN} -sf ../../../etc/PhredPar/phredpar.dat ${STAGEDIR}${DATADIR}/lib/phredpar.dat
76	.for f in ${BINARIES}
77	@${CHMOD} a-r ${PREFIX}/bin/${f}
78	.endfor
79	.for f in ${CONTRIBS}
80	@${INSTALL_SCRIPT} ${WRKSRC}/contributions/${f} ${PREFIX}/bin/
81	.endfor
82	.for f in ${SCRIPTS}
83	@${INSTALL_SCRIPT} ${WRKSRC}/scripts/${f} ${PREFIX}/bin/
84	.endfor
85	@${MKDIR} ${DATADIR}
86	.for f in ${DATAFILES}
87	@${INSTALL_DATA} ${WRKSRC}/misc/${f} ${DATADIR}/${f}.dist
88	.endfor
89	.for f in ${NULLFILES}
90	@${INSTALL_DATA} /dev/null ${DATADIR}/${f}.dist
91	.endfor
92	.if ${PORT_OPTIONS:MEXAMPLES}
93	@${MKDIR} ${EXAMPLESDIR}
94	.for dir in ${EXAMPLES}
95	@${CP} -R ${WRKSRC}/${dir} ${EXAMPLESDIR}
96	.endfor
97	.endif
98	.if ${PORT_OPTIONS:MDOCS}
99	@${MKDIR} ${DOCSDIR}
100	.for f in ${PORTDOCS}
101	@${INSTALL_DATA} ${WRKSRC}/${f} ${DOCSDIR}
102	.endfor
103	.endif
104	.if ! ${PORT_OPTIONS:MEXAMPLES}
105	@${ECHO_CMD} "Examples were not installed. You can define WITH_EXAMPLES=yes to install them."
106	.endif
107	@${ECHO_CMD} "You must set the CONSED_HOME environment variable to '${PREFIX}'"
108		38
109	.include <bsd.port.mk>	39	.include <bsd.port.mk>

Line 0 Link Here

(-)files/patch-installConsed.perl (+51 lines)
	1	--- installConsed.perl.orig 2014-02-12 05:28:45.000000000 +0900
	2	+++ installConsed.perl 2014-06-24 16:57:29.000000000 +0900
	3	@@ -9,7 +9,7 @@
	4	# and this must be empty and must allow write access
	5
	6	# edit this if you are using a different compiler than gcc
	7	-$CC = "gcc";
	8	+$CC = $ENV{'CC'};
	9
	10	$szVersion = "25.0";
	11
	12	@@ -78,9 +78,9 @@
	13	$szHowToStartOver = "if you have had an error in the midst of this script, you have a problem because some things have been done and others not done. The cleanest solution is to go back to where nothing is done. To do that, type:\nrm -rf $szConsedHome/bin\nrm -rf $szConsedHome/lib\nrm -rf $szConsedHome/examples";
	14
	15
	16	-if ( -e "$szConsedHome/bin" ) {
	17	- die "$szConsedHome/bin already exists\n$szHowToStartOver\n";
	18	-}
	19	+#if ( -e "$szConsedHome/bin" ) {
	20	+# die "$szConsedHome/bin already exists\n$szHowToStartOver\n";
	21	+#}
	22
	23	if ( -e "$szConsedHome/lib" ) {
	24	die "$szConsedHome/lib already exists\n$szHowToStartOver\n";
	25	@@ -91,7 +91,7 @@
	26	}
	27
	28
	29	-&doCommand( "mkdir $szConsedHome/bin" );
	30	+#&doCommand( "mkdir $szConsedHome/bin" );
	31	&doCommand( "mkdir -p $szConsedHome/lib/screenLibs" );
	32	&doCommand( "mkdir $szConsedHome/examples" );
	33	&doCommand( "cp $szConsedExecutable $szConsedHome/bin" );
	34	@@ -101,7 +101,7 @@
	35	print "done\n";
	36	&doCommand( "cp README.txt $szConsedHome" );
	37
	38	-&doCommand( "chmod -R a+w $szConsedHome/examples/*" );
	39	+#&doCommand( "chmod -R a+w $szConsedHome/examples/*" );
	40
	41	&doCommand( "cp $szDownloadDirectory/scripts/* $szConsedHome/bin" );
	42
	43	@@ -112,7 +112,7 @@
	44	@aScreenLibs = split(' ', $szScreenLibs );
	45	foreach $szScreenFile ( @aScreenLibs ) {
	46	print "about to cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs\n";
	47	- &doCommand( "cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs" );
	48	+ &doCommand( "cp $szDownloadDirectory/misc/$szScreenFile $szConsedHome/lib/screenLibs/$szScreenFile.sample" );
	49	}
	50
	51

Lines 1-36 Link Here

(-)files/patch-scripts_phredPhrap (-30 / +5 lines)
1	--- scripts/phredPhrap.orig 2007-09-26 04:02:20.000000000 +0900	1	--- scripts/phredPhrap.orig 2014-02-12 05:28:45.000000000 +0900
2	+++ scripts/phredPhrap 2007-12-11 17:32:27.000000000 +0900	2	+++ scripts/phredPhrap 2014-06-22 03:07:33.000000000 +0900
3	@@ -101,7 +101,7 @@	3	@@ -217,7 +217,7 @@
		4	#$solexaDirPath = "../solexa_dir";
		5	#$sffDirPath = "../sff_dir";
4		6
5
6	# change this to reflect wherever you put the phredpar.dat file
7	-$szPhredParameterFile = $szConsedHome . "/lib/phredpar.dat";
8	+$szPhredParameterFile = $szConsedHome . "/etc/PhredPar/phredpar.dat";
9	#$szPhredParameterFile = "/usr/local/common/lib/PhredPar/phredpar.dat";
10	#$szPhredParameterFile = "/usr/local/etc/PhredPar/phredpar.dat";
11
12	@@ -207,7 +207,7 @@
13	$chromatDirPath = "../chromat_dir";
14	$phdDirPath = "../phd_dir";
15
16	-$niceExe = "/bin/nice";	7	-$niceExe = "/bin/nice";
17	+$niceExe = "/usr/bin/nice";	8	+$niceExe = "/usr/bin/nice";
18	$mvExe = "/bin/mv";	9	$mvExe = "/bin/mv";
19	$lsExe = "/bin/ls";	10	$lsExe = "/bin/ls";
20	$pwdExe = "/bin/pwd";	11	$pwdExe = "/bin/pwd";
21	@@ -568,11 +568,11 @@
22
23	# only uncomment the following 4 lines when you have customized
24	# determineReadTypes.perl
25	-#print "\n\n--------------------------------------------------------\n";
26	-#print "Now running determineReadTypes.perl...\n";
27	-#print "--------------------------------------------------------\n\n\n";
28	+print "\n\n--------------------------------------------------------\n";
29	+print "Now running determineReadTypes.perl...\n";
30	+print "--------------------------------------------------------\n\n\n";
31
32	-#!system( "$determineReadTypes" ) \|\| die "some problem running determineReadTypes.perl $!\n";
33	+!system( "$determineReadTypes" ) \|\| die "some problem running determineReadTypes.perl $!\n";
34
35
36	print "\n\n--------------------------------------------------------\n";

Line 0 Link Here

(-)files/pkg-message.in (+12 lines)
	1	-----------------------------------------------------------------------------
	2	CONSED installation directory: %%PREFIX%%/share/consed
	3
	4	You must do either of following (see section 4.5 of README.txt):
	5	1) set CONSED_HOME environment variable to the location above
	6	2) make /usr/local/genome be a symlink targeting to the location above
	7
	8	Example files are installed not as world writable, which README.txt assumes.
	9	So you must copy the files to anywhere you have writable permissions.
	10
	11	Now you can follow README.txt from section 4.12
	12	-----------------------------------------------------------------------------