Attachment 96713 Details for Bug 135376 – embassy.diff

[patch] embassy.diff

embassy.diff (text/x-patch; charset=US-ASCII), 49.42 KB, created by Fernan Aguero on 2009-06-16 13:06:47 UTC

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Creator: Fernan Aguero

Created: 2009-06-16 13:06:47 UTC

Size: 49.42 KB

patch

obsolete

>diff -ruN --exclude=CVS /usr/ports/biology/embassy/Makefile embassy/Makefile
>--- /usr/ports/biology/embassy/Makefile	2009-06-01 09:25:56.000000000 -0300
>+++ embassy/Makefile	2009-06-13 00:25:40.000000000 -0300
>@@ -7,7 +7,7 @@
> #
> 
> PORTNAME=	embassy
>-PORTVERSION=	5.0.0
>+PORTVERSION=	6.0.0
> CATEGORIES=	biology
> MASTER_SITES=	ftp://emboss.open-bio.org/pub/EMBOSS/ \
> 		ftp://ftp.ebi.ac.uk/pub/software/unix/EMBOSS/
>@@ -16,9 +16,7 @@
> MAINTAINER=	fernan@iib.unsam.edu.ar
> COMMENT=	A collection of contributed EMBOSS applications
> 
>-LIB_DEPENDS=	nucleus.5:${PORTSDIR}/biology/emboss
>-
>-BROKEN=		does not compile
>+LIB_DEPENDS=	nucleus.6:${PORTSDIR}/biology/emboss
> 
> PREFIX?=	${LOCALBASE}/emboss
> NO_MTREE=	yes
>@@ -38,34 +36,40 @@
> 		EMNU		"EMBOSS simple menu" on \
> 		ESIM4		"Align cDNA/EST to genome" on \
> 		HMMER		"HMM alignment and searches" on \
>-		MEME		"Motif detection" on \
>+		MEMENEW		"Motif detection" on \
> 		MSE		"A multiple sequence screen editor" on \
> 		MYEMBOSS	"Examples for developers of EMBOSS apps" on \
>-		PHYLIP		"Phylogeny inference" on \
>+		PHYLIPNEW	"Phylogeny inference" on \
> 		TOPO		"Transmembrane display" on \
>-		VIENNA		"RNA folding" on
>+		VIENNA		"RNA folding" on \
>+		MIRA		"Whole Genome shotgun and EST assembler" on \
>+		IPRSCAN		"InterPro scan" on \
>+		CBSTOOLS	"CBS Tools" on
> 
>-CONFIGURE_ENV+=	CPPFLAGS="-I${PREFIX}/include -I${LOCALBASE}/include" \
>-		LDFLAGS="-L${PREFIX}/lib -L${LOCALBASE}/lib"
>+CONFIGURE_ENV+=	CPPFLAGS="-I${PREFIX}/include -I${LOCALBASE}/include -I${LOCALBASE}/emboss/include" \
>+		LDFLAGS="-L${PREFIX}/lib -L${LOCALBASE}/lib -L${LOCALBASE}/emboss/lib"
> 
> EMBASSY_WRKDIR=		${WRKSRC}/EMBASSY
> DOMAINATRIX_VERSION=	0.1.0
> EMNU_VERSION=		1.05
> ESIM4_VERSION=		1.0.0
> HMMER_VERSION=		2.3.2
>-MEME_VERSION=		0.1.0
>+MEMENEW_VERSION=	0.1.0
> MSE_VERSION=		1.0.0
> TOPO_VERSION=		1.0.0
>-PHYLIP_VERSION=		3.6b
>+PHYLIPNEW_VERSION=	3.67
> DOMALIGN_VERSION=	0.1.0
> DOMSEARCH_VERSION=	0.1.0
> SIGNATURE_VERSION=	0.1.0
> STRUCTURE_VERSION=	0.1.0
>-MYEMBOSS_VERSION=	3.0.0
>-VIENNA_VERSION=		1.6
>-EMBASSY_APPS=		DOMAINATRIX EMNU ESIM4 HMMER MEME MSE PHYLIP \
>+MYEMBOSS_VERSION=	6.0.0
>+VIENNA_VERSION=		1.7.2
>+MIRA_VERSION=		2.8.2
>+IPRSCAN_VERSION=	4.3.1
>+CBSTOOLS_VERSION=	1.0.0
>+EMBASSY_APPS=		DOMAINATRIX EMNU ESIM4 HMMER MEMENEW MSE PHYLIPNEW \
> 			TOPO DOMALIGN DOMSEARCH SIGNATURE STRUCTURE MYEMBOSS \
>-			VIENNA
>+			VIENNA MIRA IPRSCAN CBSTOOLS
> 
> .include <bsd.port.pre.mk>
> 
>diff -ruN --exclude=CVS /usr/ports/biology/embassy/distinfo embassy/distinfo
>--- /usr/ports/biology/embassy/distinfo	2008-04-17 09:50:39.000000000 -0300
>+++ embassy/distinfo	2009-06-13 00:25:40.000000000 -0300
>@@ -1,42 +1,51 @@
>-MD5 (emboss/DOMAINATRIX-0.1.0.tar.gz) = 0be3c59550e1e22924ea2540b11af275
>-SHA256 (emboss/DOMAINATRIX-0.1.0.tar.gz) = b81fde3ab329ab75482b341568ef2965d99803765438f3825688a0d2abc05ca6
>-SIZE (emboss/DOMAINATRIX-0.1.0.tar.gz) = 420051
>-MD5 (emboss/EMNU-1.05.tar.gz) = 64d8b9c2cd1a566aebb3355eb684bd35
>-SHA256 (emboss/EMNU-1.05.tar.gz) = 56a55f336b0083ecfd2fd2dae0613f46e802eacb3214c16fc1966e6516795b95
>-SIZE (emboss/EMNU-1.05.tar.gz) = 389665
>-MD5 (emboss/ESIM4-1.0.0.tar.gz) = ee65d0da0f2d75959f370b13f2218c1c
>-SHA256 (emboss/ESIM4-1.0.0.tar.gz) = eee1cc8fef40e19fab74b16f1c1cb0883a49561eb9fdc2075f428085c6722bda
>-SIZE (emboss/ESIM4-1.0.0.tar.gz) = 431329
>-MD5 (emboss/HMMER-2.3.2.tar.gz) = 3aa5707db81854f2674bf27aaeb1362e
>-SHA256 (emboss/HMMER-2.3.2.tar.gz) = 31bbcca1f71b82170a65c4438f9cb9f1dfe3d4e066037a852060b010e3e39b5b
>-SIZE (emboss/HMMER-2.3.2.tar.gz) = 565223
>-MD5 (emboss/MEME-0.1.0.tar.gz) = d304f3b8a8e15af4dfa7b295655d80ec
>-SHA256 (emboss/MEME-0.1.0.tar.gz) = ed4c02010af036515203661c28776b5e773e77eccad59990b7ac1410399d45ef
>-SIZE (emboss/MEME-0.1.0.tar.gz) = 448413
>-MD5 (emboss/MSE-1.0.0.tar.gz) = 3978a06e3651104f622a5834523c45de
>-SHA256 (emboss/MSE-1.0.0.tar.gz) = e35560310ece8bb2dec7eeb88e99f39f313bf7366afc445e3b074b687e7f36b2
>-SIZE (emboss/MSE-1.0.0.tar.gz) = 445013
>-MD5 (emboss/PHYLIP-3.6b.tar.gz) = 760a90bea49872aba95fd7dd2b67570c
>-SHA256 (emboss/PHYLIP-3.6b.tar.gz) = c2397937f4b827844192a33b31f13271a3560c81045543d912a9c28eb6ad894f
>-SIZE (emboss/PHYLIP-3.6b.tar.gz) = 1594433
>-MD5 (emboss/TOPO-1.0.0.tar.gz) = d45602a1b1f22da50a775c41df5fe672
>-SHA256 (emboss/TOPO-1.0.0.tar.gz) = ed1921e92d1bbd9fcc16ab36f2fcbafca9e60cc0d4b4fd1da77660ffd3e7b2f2
>-SIZE (emboss/TOPO-1.0.0.tar.gz) = 379381
>-MD5 (emboss/DOMALIGN-0.1.0.tar.gz) = e5d004c1223116abaebb6657ae4a80fa
>-SHA256 (emboss/DOMALIGN-0.1.0.tar.gz) = aa61cfc6da3cc478dd7f476537cdc6d966b00b90e2adedc709eb75e39e840c5c
>-SIZE (emboss/DOMALIGN-0.1.0.tar.gz) = 460530
>-MD5 (emboss/DOMSEARCH-0.1.0.tar.gz) = 778ab15bce09a6440fc6859b3a27157d
>-SHA256 (emboss/DOMSEARCH-0.1.0.tar.gz) = 23e069161ec56df5eab5fc491ca3493c056cfee42f2e05f1b5ef258498792a87
>-SIZE (emboss/DOMSEARCH-0.1.0.tar.gz) = 469776
>-MD5 (emboss/SIGNATURE-0.1.0.tar.gz) = 26deae308cc5aac3dee5dd03df2ae9e8
>-SHA256 (emboss/SIGNATURE-0.1.0.tar.gz) = 9b0529befdbe5d56b3370cfffe0a4b4cc523f350b50ddd4a61dd24776a1770e8
>-SIZE (emboss/SIGNATURE-0.1.0.tar.gz) = 573992
>-MD5 (emboss/STRUCTURE-0.1.0.tar.gz) = 6736b4741b15d4cba488a5422fcfaee1
>-SHA256 (emboss/STRUCTURE-0.1.0.tar.gz) = 3ed8ea5373232cd80302ff3b8727838b4de2f6b39aa263ab9530bbbe71d730c1
>-SIZE (emboss/STRUCTURE-0.1.0.tar.gz) = 530874
>-MD5 (emboss/MYEMBOSS-3.0.0.tar.gz) = 9c3d6ea80166f62cd6ee63dfcb7e57a4
>-SHA256 (emboss/MYEMBOSS-3.0.0.tar.gz) = dc21b1772c2d76ed1c717eba6f8443b86cdf2e3cbcf71e056cdb9723138e4440
>-SIZE (emboss/MYEMBOSS-3.0.0.tar.gz) = 354179
>-MD5 (emboss/VIENNA-1.6.tar.gz) = 282ed7ac9c1741160fcb1e8d48539311
>-SHA256 (emboss/VIENNA-1.6.tar.gz) = 04c4a57486e23c2cc8ef396d9012c396519b2ab1b13b2500199e6457a34cfa58
>-SIZE (emboss/VIENNA-1.6.tar.gz) = 635638
>+MD5 (emboss/DOMAINATRIX-0.1.0.tar.gz) = 0f5211a2ee754b4f32332beaf660964c
>+SHA256 (emboss/DOMAINATRIX-0.1.0.tar.gz) = 7596e76b79f19d77e27b8ea8a75a3e1ba4c806aa548cb9675f23e2bb434a42b1
>+SIZE (emboss/DOMAINATRIX-0.1.0.tar.gz) = 420983
>+MD5 (emboss/EMNU-1.05.tar.gz) = df6c267bb12e3ecd19bffe5f678bfdb3
>+SHA256 (emboss/EMNU-1.05.tar.gz) = 2f58621cc7151f813ce608dcd5b3505fc84af882c778fe28167508d6851dc333
>+SIZE (emboss/EMNU-1.05.tar.gz) = 390229
>+MD5 (emboss/ESIM4-1.0.0.tar.gz) = 36d9e1dc37004ff4189f583d8d3b037b
>+SHA256 (emboss/ESIM4-1.0.0.tar.gz) = 219b3541e2a67d31fd62140c2c9c2b41e2d3d814dec6aaf691f764e337917577
>+SIZE (emboss/ESIM4-1.0.0.tar.gz) = 431898
>+MD5 (emboss/HMMER-2.3.2.tar.gz) = edc18f5515f1fd712b7d2accf58a9a2e
>+SHA256 (emboss/HMMER-2.3.2.tar.gz) = 9b27f2b7a9059b017e3bd3d31de08f6fbf7d49c3e025d73abd83ff0567732258
>+SIZE (emboss/HMMER-2.3.2.tar.gz) = 565686
>+MD5 (emboss/MEMENEW-0.1.0.tar.gz) = 72f4a3b8544aa1603301b7b83692a133
>+SHA256 (emboss/MEMENEW-0.1.0.tar.gz) = 5411d1445feb1b5e460e598a9d7e670a4357fe7aa350d96531b1aa9c79fab636
>+SIZE (emboss/MEMENEW-0.1.0.tar.gz) = 450102
>+MD5 (emboss/MSE-1.0.0.tar.gz) = 3122000020565077a421a53cf114127a
>+SHA256 (emboss/MSE-1.0.0.tar.gz) = 9e3688ff3514b7ea6cf104fbd2a2e611fe726fb7ac4bebab6f3c103f05c08d90
>+SIZE (emboss/MSE-1.0.0.tar.gz) = 445562
>+MD5 (emboss/PHYLIPNEW-3.67.tar.gz) = cbd539fb39673cc362d827fa731f03f3
>+SHA256 (emboss/PHYLIPNEW-3.67.tar.gz) = efbfdbff0109c62823caf13f20cb6462f54371d55899fcbbe29240e503584945
>+SIZE (emboss/PHYLIPNEW-3.67.tar.gz) = 1624802
>+MD5 (emboss/TOPO-1.0.0.tar.gz) = 03ea6cf067db1f673ec27195076b0e4a
>+SHA256 (emboss/TOPO-1.0.0.tar.gz) = a7fd297c5e27becedd4aafd272123a176581c68b90de872fb3cb46356333cc16
>+SIZE (emboss/TOPO-1.0.0.tar.gz) = 379929
>+MD5 (emboss/DOMALIGN-0.1.0.tar.gz) = 58dff4731762bef6248b163bf2d160bd
>+SHA256 (emboss/DOMALIGN-0.1.0.tar.gz) = c448dc461b36e299c6338f25c102de2388cc33515eae8fd1dc7097920efa409a
>+SIZE (emboss/DOMALIGN-0.1.0.tar.gz) = 462156
>+MD5 (emboss/DOMSEARCH-0.1.0.tar.gz) = e862f6b4f02f4640f9729862efab5a0a
>+SHA256 (emboss/DOMSEARCH-0.1.0.tar.gz) = fb34c1b2f668f89abe6912fe75e9828c53802820753aa8a1b952f37894939c95
>+SIZE (emboss/DOMSEARCH-0.1.0.tar.gz) = 470537
>+MD5 (emboss/SIGNATURE-0.1.0.tar.gz) = cc7c707c41156b6681ddca7b76ff009d
>+SHA256 (emboss/SIGNATURE-0.1.0.tar.gz) = 0966e165516448e214275e3cafcca91b9bb83d96264d2bf205aace1380138d2f
>+SIZE (emboss/SIGNATURE-0.1.0.tar.gz) = 574940
>+MD5 (emboss/STRUCTURE-0.1.0.tar.gz) = 7df40530fd15f441c531f5dbd5c10fff
>+SHA256 (emboss/STRUCTURE-0.1.0.tar.gz) = cd8b17947fe764e830bd14887deb85a5f196f490d25b9c6408aaca0c1baecd23
>+SIZE (emboss/STRUCTURE-0.1.0.tar.gz) = 532035
>+MD5 (emboss/MYEMBOSS-6.0.0.tar.gz) = 5f51d49558131a518ac40220dd7fa0c3
>+SHA256 (emboss/MYEMBOSS-6.0.0.tar.gz) = 7f24d800044b0957006c8550de74ca621301f6de1c724980fe90e8a6093b6048
>+SIZE (emboss/MYEMBOSS-6.0.0.tar.gz) = 343305
>+MD5 (emboss/VIENNA-1.7.2.tar.gz) = f6ec2092de41dafdb6cf302dd5412498
>+SHA256 (emboss/VIENNA-1.7.2.tar.gz) = 7bed50f9992aec250f974f5c5fd9a42d49c24f05e0e9fac88bb94b2d76be25db
>+SIZE (emboss/VIENNA-1.7.2.tar.gz) = 682200
>+MD5 (emboss/MIRA-2.8.2.tar.gz) = c74a63e10ce983c39389593693c851e7
>+SHA256 (emboss/MIRA-2.8.2.tar.gz) = 33d756bd50fe26c04aff862f34230feaad831cbe538096e4d8e5c8e0b6784fe1
>+SIZE (emboss/MIRA-2.8.2.tar.gz) = 365566
>+MD5 (emboss/IPRSCAN-4.3.1.tar.gz) = 8164a9b8392d29ba3bc723c1bc5da2ff
>+SHA256 (emboss/IPRSCAN-4.3.1.tar.gz) = df0bdd33ea6f279ed018f4a22e686cc14ff0e9f65342177b3b9dbb2951c3636a
>+SIZE (emboss/IPRSCAN-4.3.1.tar.gz) = 339939
>+MD5 (emboss/CBSTOOLS-1.0.0.tar.gz) = 9352c924a8c86233fbf6dc80c58cc481
>+SHA256 (emboss/CBSTOOLS-1.0.0.tar.gz) = b61b6c19d18dd3a35eef248feb92ee68bcee0e9fc99af5185deee04a17fa3693
>+SIZE (emboss/CBSTOOLS-1.0.0.tar.gz) = 343812
>diff -ruN --exclude=CVS /usr/ports/biology/embassy/pkg-plist embassy/pkg-plist
>--- /usr/ports/biology/embassy/pkg-plist	2008-04-17 09:50:39.000000000 -0300
>+++ embassy/pkg-plist	2009-06-13 20:02:41.000000000 -0300
>@@ -1,10 +1,3 @@
>-%%PLIST_DOMAINATRIX%%bin/cathparse
>-%%PLIST_DOMAINATRIX%%bin/domainnr
>-%%PLIST_DOMAINATRIX%%bin/domainreso
>-%%PLIST_DOMAINATRIX%%bin/domainseqs
>-%%PLIST_DOMAINATRIX%%bin/domainsse
>-%%PLIST_DOMAINATRIX%%bin/scopparse
>-%%PLIST_DOMAINATRIX%%bin/ssematch
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/cathparse.acd
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainnr.acd
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainreso.acd
>@@ -12,6 +5,13 @@
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainsse.acd
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/scopparse.acd
> %%PLIST_DOMAINATRIX%%share/EMBOSS/acd/ssematch.acd
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/cathparse.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainnr.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainreso.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainseqs.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainsse.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/scopparse.txt
>+%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/ssematch.txt
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/index.html
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/cathparse.html
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainnr.html
>@@ -20,295 +20,54 @@
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainsse.html
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/scopparse.html
> %%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/ssematch.html
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/cathparse.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainnr.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainreso.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainseqs.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainsse.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/scopparse.txt
>-%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/ssematch.txt
>-%%PLIST_DOMALIGN%%bin/allversusall
>-%%PLIST_DOMALIGN%%bin/domainalign
>-%%PLIST_DOMALIGN%%bin/domainrep
>-%%PLIST_DOMALIGN%%bin/seqalign
>+%%PLIST_DOMAINATRIX%%bin/cathparse
>+%%PLIST_DOMAINATRIX%%bin/domainnr
>+%%PLIST_DOMAINATRIX%%bin/domainreso
>+%%PLIST_DOMAINATRIX%%bin/domainseqs
>+%%PLIST_DOMAINATRIX%%bin/domainsse
>+%%PLIST_DOMAINATRIX%%bin/scopparse
>+%%PLIST_DOMAINATRIX%%bin/ssematch
>+%%PLIST_DOMAINATRIX%%@dirrm share/EMBOSS/doc/html/embassy/domainatrix
> %%PLIST_DOMALIGN%%share/EMBOSS/acd/allversusall.acd
> %%PLIST_DOMALIGN%%share/EMBOSS/acd/domainalign.acd
> %%PLIST_DOMALIGN%%share/EMBOSS/acd/domainrep.acd
> %%PLIST_DOMALIGN%%share/EMBOSS/acd/seqalign.acd
>+%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/allversusall.txt
>+%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainalign.txt
>+%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainrep.txt
>+%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/seqalign.txt
> %%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/index.html
> %%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/allversusall.html
> %%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/domainalign.html
> %%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/domainrep.html
> %%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/seqalign.html
>-%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/allversusall.txt
>-%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainalign.txt
>-%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainrep.txt
>-%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/seqalign.txt
>-%%PLIST_DOMSEARCH%%bin/seqnr
>-%%PLIST_DOMSEARCH%%bin/seqsearch
>-%%PLIST_DOMSEARCH%%bin/seqfraggle
>-%%PLIST_DOMSEARCH%%bin/seqsort
>-%%PLIST_DOMSEARCH%%bin/seqwords
>+%%PLIST_DOMALIGN%%@dirrm share/EMBOSS/doc/html/embassy/domalign
>+%%PLIST_DOMALIGN%%bin/allversusall
>+%%PLIST_DOMALIGN%%bin/domainalign
>+%%PLIST_DOMALIGN%%bin/domainrep
>+%%PLIST_DOMALIGN%%bin/seqalign
> %%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqnr.acd
> %%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqsearch.acd
> %%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqfraggle.acd
> %%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqsort.acd
> %%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqwords.acd
>+%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqfraggle.txt
>+%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqnr.txt
>+%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsearch.txt
>+%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsort.txt
>+%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqwords.txt
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/index.html
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqfraggle.html
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqnr.html
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqsearch.html
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqsort.html
> %%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqwords.html
>-%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqfraggle.txt
>-%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqnr.txt
>-%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsearch.txt
>-%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsort.txt
>-%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqwords.txt
>-%%PLIST_EMNU%%bin/emnu
>-%%PLIST_EMNU%%share/EMBOSS/acd/emnu.acd
>-%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/index.html
>-%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/emnu.html
>-%%PLIST_EMNU%%share/EMBOSS/doc/programs/text/emnu.txt
>-%%PLIST_ESIM4%%bin/esim4
>-%%PLIST_ESIM4%%share/EMBOSS/acd/esim4.acd
>-%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/index.html
>-%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/esim4.html
>-%%PLIST_ESIM4%%share/EMBOSS/doc/programs/text/esim4.txt
>-%%PLIST_HMMER%%bin/ehmmcalibrate
>-%%PLIST_HMMER%%bin/ehmmconvert
>-%%PLIST_HMMER%%bin/ehmmemit
>-%%PLIST_HMMER%%bin/ehmmfetch
>-%%PLIST_HMMER%%bin/ehmmindex
>-%%PLIST_HMMER%%bin/ehmmbuild
>-%%PLIST_HMMER%%bin/ehmmalign
>-%%PLIST_HMMER%%bin/ehmmpfam
>-%%PLIST_HMMER%%bin/ehmmsearch
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmcalibrate.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmconvert.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmemit.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmfetch.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmindex.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmbuild.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmalign.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmpfam.acd
>-%%PLIST_HMMER%%share/EMBOSS/acd/ehmmsearch.acd
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/index.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmalign.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmbuild.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmcalibrate.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmconvert.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmemit.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmfetch.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmindex.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmpfam.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmsearch.html
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmalign.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmbuild.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmcalibrate.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmconvert.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmemit.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmfetch.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmindex.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmpfam.txt
>-%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmsearch.txt
>-%%PLIST_MEME%%bin/emast
>-%%PLIST_MEME%%bin/ememe
>-%%PLIST_MEME%%share/EMBOSS/acd/emast.acd
>-%%PLIST_MEME%%share/EMBOSS/acd/ememe.acd
>-%%PLIST_MEME%%share/EMBOSS/doc/html/embassy/memenew/index.html
>-%%PLIST_MEME%%share/EMBOSS/doc/html/embassy/memenew/emast.html
>-%%PLIST_MEME%%share/EMBOSS/doc/html/embassy/memenew/ememe.html
>-%%PLIST_MEME%%share/EMBOSS/doc/programs/text/emast.txt
>-%%PLIST_MEME%%share/EMBOSS/doc/programs/text/ememe.txt
>-%%PLIST_MSE%%bin/mse
>-%%PLIST_MSE%%share/EMBOSS/acd/mse.acd
>-%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/index.html
>-%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/mse.html
>-%%PLIST_MSE%%share/EMBOSS/doc/programs/text/mse.txt
>-%%PLIST_MSE%%lib/libckit.so.1
>-%%PLIST_MSE%%lib/libckit.so
>-%%PLIST_MSE%%lib/libckit.la
>-%%PLIST_MSE%%lib/libckit.a
>-%%PLIST_MYEMBOSS%%bin/myseq
>-%%PLIST_MYEMBOSS%%bin/mytest
>-%%PLIST_MYEMBOSS%%share/EMBOSS/acd/myseq.acd
>-%%PLIST_MYEMBOSS%%share/EMBOSS/acd/mytest.acd
>-%%PLIST_MYEMBOSS%%share/EMBOSS/doc/html/embassy/myseq/index.html
>-%%PLIST_MYEMBOSS%%share/EMBOSS/doc/html/embassy/myseq/myseq.html
>-%%PLIST_MYEMBOSS%%share/EMBOSS/doc/programs/text/myseq.txt
>-%%PLIST_PHYLIP%%bin/fclique
>-%%PLIST_PHYLIP%%bin/fconsense
>-%%PLIST_PHYLIP%%bin/fcontml
>-%%PLIST_PHYLIP%%bin/fcontrast
>-%%PLIST_PHYLIP%%bin/fdnacomp
>-%%PLIST_PHYLIP%%bin/fdnadist
>-%%PLIST_PHYLIP%%bin/fdnainvar
>-%%PLIST_PHYLIP%%bin/fdnaml
>-%%PLIST_PHYLIP%%bin/fdnamlk
>-%%PLIST_PHYLIP%%bin/fdnamove
>-%%PLIST_PHYLIP%%bin/fdnapars
>-%%PLIST_PHYLIP%%bin/fdnapenny
>-%%PLIST_PHYLIP%%bin/fdolmove
>-%%PLIST_PHYLIP%%bin/fdollop
>-%%PLIST_PHYLIP%%bin/fdolpenny
>-%%PLIST_PHYLIP%%bin/fdrawgram
>-%%PLIST_PHYLIP%%bin/fdrawtree
>-%%PLIST_PHYLIP%%bin/ffactor
>-%%PLIST_PHYLIP%%bin/ffitch
>-%%PLIST_PHYLIP%%bin/fgendist
>-%%PLIST_PHYLIP%%bin/fkitsch
>-%%PLIST_PHYLIP%%bin/fmix
>-%%PLIST_PHYLIP%%bin/fmove
>-%%PLIST_PHYLIP%%bin/fneighbor
>-%%PLIST_PHYLIP%%bin/fpars
>-%%PLIST_PHYLIP%%bin/fpenny
>-%%PLIST_PHYLIP%%bin/fproml
>-%%PLIST_PHYLIP%%bin/fpromlk
>-%%PLIST_PHYLIP%%bin/fprotdist
>-%%PLIST_PHYLIP%%bin/fprotpars
>-%%PLIST_PHYLIP%%bin/frestdist
>-%%PLIST_PHYLIP%%bin/frestml
>-%%PLIST_PHYLIP%%bin/fretree
>-%%PLIST_PHYLIP%%bin/fdiscboot
>-%%PLIST_PHYLIP%%bin/ffreqboot
>-%%PLIST_PHYLIP%%bin/frestboot
>-%%PLIST_PHYLIP%%bin/fseqboot
>-%%PLIST_PHYLIP%%bin/fseqbootall
>-%%PLIST_PHYLIP%%bin/ftreedist
>-%%PLIST_PHYLIP%%bin/ftreedistpair
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fclique.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fconsense.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fcontml.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fcontrast.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdiscboot.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnacomp.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnadist.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnainvar.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnaml.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnamlk.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnamove.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnapars.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdnapenny.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdollop.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdolmove.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdolpenny.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdrawgram.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fdrawtree.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/ffactor.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/ffitch.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/ffreqboot.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fgendist.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fkitsch.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fmix.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fmove.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fneighbor.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fpars.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fpenny.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fproml.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fpromlk.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fprotdist.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fprotpars.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/frestboot.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/frestdist.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/frestml.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fretree.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fseqboot.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/fseqbootall.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/ftreedist.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/acd/ftreedistpair.acd
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/index.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fclique.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fconsense.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fcontml.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fcontrast.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdiscboot.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnacomp.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnadist.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnainvar.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnaml.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnamlk.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapars.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapenny.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdollop.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdolpenny.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawgram.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawtree.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/ffactor.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/ffitch.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/ffreqboot.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fmix.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fgendist.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fkitsch.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fmove.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fneighbor.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fpars.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fpenny.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fproml.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fpromlk.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fprotdist.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fprotpars.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/frestboot.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/frestml.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fretree.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fseqboot.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/fseqbootall.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedist.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedistpair.html
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fclique.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fconsense.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fcontml.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fcontrast.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdiscboot.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnacomp.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnadist.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnainvar.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnaml.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnamlk.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnapars.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdnapenny.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdollop.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdolpenny.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdrawgram.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fdrawtree.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/ffactor.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/ffitch.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/ffreqboot.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fgendist.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fkitsch.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fmix.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fmove.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fneighbor.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fpars.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fpenny.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fproml.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fpromlk.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fprotdist.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fprotpars.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/frestboot.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/frestml.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fretree.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fseqboot.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/fseqbootall.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/ftreedist.txt
>-%%PLIST_PHYLIP%%share/EMBOSS/doc/programs/text/ftreedistpair.txt
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font1
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font2
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font3
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font4
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font5
>-%%PLIST_PHYLIP%%share/PHYLIP/data/phylipnew/font6
>-%%PLIST_PHYLIP%%@dirrm share/PHYLIP/data/phylipnew
>-%%PLIST_PHYLIP%%@dirrm share/PHYLIP/data
>-%%PLIST_PHYLIP%%@dirrm share/PHYLIP
>-%%PLIST_SIGNATURE%%bin/libgen
>-%%PLIST_SIGNATURE%%bin/matgen3d
>-%%PLIST_SIGNATURE%%bin/rocplot
>-%%PLIST_SIGNATURE%%bin/rocon
>-%%PLIST_SIGNATURE%%bin/siggen
>-%%PLIST_SIGNATURE%%bin/siggenlig
>-%%PLIST_SIGNATURE%%bin/sigscan
>-%%PLIST_SIGNATURE%%bin/sigscanlig
>+%%PLIST_DOMSEARCH%%@dirrm share/EMBOSS/doc/html/embassy/domsearch
>+%%PLIST_DOMSEARCH%%bin/seqnr
>+%%PLIST_DOMSEARCH%%bin/seqsearch
>+%%PLIST_DOMSEARCH%%bin/seqfraggle
>+%%PLIST_DOMSEARCH%%bin/seqsort
>+%%PLIST_DOMSEARCH%%bin/seqwords
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/libgen.acd
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/matgen3d.acd
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/rocplot.acd
>@@ -317,6 +76,14 @@
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/siggenlig.acd
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/sigscan.acd
> %%PLIST_SIGNATURE%%share/EMBOSS/acd/sigscanlig.acd
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/libgen.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/matgen3d.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocon.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocplot.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggen.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggenlig.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscan.txt
>+%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscanlig.txt
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/index.html
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/libgen.html
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/matgen3d.html
>@@ -326,22 +93,15 @@
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/siggenlig.html
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/sigscan.html
> %%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/sigscanlig.html
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/libgen.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/matgen3d.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocon.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocplot.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggen.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggenlig.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscan.txt
>-%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscanlig.txt
>-%%PLIST_STRUCTURE%%bin/contacts
>-%%PLIST_STRUCTURE%%bin/domainer
>-%%PLIST_STRUCTURE%%bin/hetparse
>-%%PLIST_STRUCTURE%%bin/interface
>-%%PLIST_STRUCTURE%%bin/pdbparse
>-%%PLIST_STRUCTURE%%bin/pdbplus
>-%%PLIST_STRUCTURE%%bin/pdbtosp
>-%%PLIST_STRUCTURE%%bin/sites
>+%%PLIST_SIGNATURE%%@dirrm share/EMBOSS/doc/html/embassy/signature
>+%%PLIST_SIGNATURE%%bin/libgen
>+%%PLIST_SIGNATURE%%bin/matgen3d
>+%%PLIST_SIGNATURE%%bin/rocplot
>+%%PLIST_SIGNATURE%%bin/rocon
>+%%PLIST_SIGNATURE%%bin/siggen
>+%%PLIST_SIGNATURE%%bin/siggenlig
>+%%PLIST_SIGNATURE%%bin/sigscan
>+%%PLIST_SIGNATURE%%bin/sigscanlig
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/contacts.acd
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/domainer.acd
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/hetparse.acd
>@@ -350,6 +110,14 @@
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/pdbplus.acd
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/pdbtosp.acd
> %%PLIST_STRUCTURE%%share/EMBOSS/acd/sites.acd
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/contacts.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/domainer.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/hetparse.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/interface.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbparse.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbplus.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbtosp.txt
>+%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/sites.txt
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/index.html
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/contacts.html
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/domainer.html
>@@ -359,35 +127,255 @@
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/pdbplus.html
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/pdbtosp.html
> %%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/sites.html
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/contacts.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/domainer.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/hetparse.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/interface.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbparse.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbplus.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbtosp.txt
>-%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/sites.txt
>-%%PLIST_TOPO%%bin/topo
>+%%PLIST_STRUCTURE%%@dirrm share/EMBOSS/doc/html/embassy/structure
>+%%PLIST_STRUCTURE%%bin/contacts
>+%%PLIST_STRUCTURE%%bin/domainer
>+%%PLIST_STRUCTURE%%bin/hetparse
>+%%PLIST_STRUCTURE%%bin/interface
>+%%PLIST_STRUCTURE%%bin/pdbparse
>+%%PLIST_STRUCTURE%%bin/pdbplus
>+%%PLIST_STRUCTURE%%bin/pdbtosp
>+%%PLIST_STRUCTURE%%bin/sites
>+%%PLIST_EMNU%%share/EMBOSS/acd/emnu.acd
>+%%PLIST_EMNU%%share/EMBOSS/doc/programs/text/emnu.txt
>+%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/index.html
>+%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/emnu.html
>+%%PLIST_EMNU%%@dirrm share/EMBOSS/doc/html/embassy/emnu
>+%%PLIST_EMNU%%bin/emnu
>+%%PLIST_ESIM4%%share/EMBOSS/acd/esim4.acd
>+%%PLIST_ESIM4%%share/EMBOSS/doc/programs/text/esim4.txt
>+%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/index.html
>+%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/esim4.html
>+%%PLIST_ESIM4%%@dirrm share/EMBOSS/doc/html/embassy/esim4
>+%%PLIST_ESIM4%%bin/esim4
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmcalibrate.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmconvert.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmemit.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmfetch.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmindex.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmbuild.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmalign.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmpfam.acd
>+%%PLIST_HMMER%%share/EMBOSS/acd/ehmmsearch.acd
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmalign.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmbuild.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmcalibrate.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmconvert.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmemit.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmfetch.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmindex.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmpfam.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmsearch.txt
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/index.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmalign.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmbuild.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmcalibrate.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmconvert.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmemit.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmfetch.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmindex.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmpfam.html
>+%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmsearch.html
>+%%PLIST_HMMER%%@dirrm share/EMBOSS/doc/html/embassy/hmmernew
>+%%PLIST_HMMER%%bin/ehmmcalibrate
>+%%PLIST_HMMER%%bin/ehmmconvert
>+%%PLIST_HMMER%%bin/ehmmemit
>+%%PLIST_HMMER%%bin/ehmmfetch
>+%%PLIST_HMMER%%bin/ehmmindex
>+%%PLIST_HMMER%%bin/ehmmbuild
>+%%PLIST_HMMER%%bin/ehmmalign
>+%%PLIST_HMMER%%bin/ehmmpfam
>+%%PLIST_HMMER%%bin/ehmmsearch
>+%%PLIST_MEMENEW%%share/EMBOSS/acd/emast.acd
>+%%PLIST_MEMENEW%%share/EMBOSS/acd/ememe.acd
>+%%PLIST_MEMENEW%%share/EMBOSS/doc/programs/text/emast.txt
>+%%PLIST_MEMENEW%%share/EMBOSS/doc/programs/text/ememe.txt
>+%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/index.html
>+%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/emast.html
>+%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/ememe.html
>+%%PLIST_MEMENEW%%@dirrm share/EMBOSS/doc/html/embassy/memenew
>+%%PLIST_MEMENEW%%bin/emast
>+%%PLIST_MEMENEW%%bin/ememe
>+%%PLIST_MSE%%share/EMBOSS/acd/mse.acd
>+%%PLIST_MSE%%share/EMBOSS/doc/programs/text/mse.txt
>+%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/index.html
>+%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/mse.html
>+%%PLIST_MSE%%@dirrm share/EMBOSS/doc/html/embassy/mse
>+%%PLIST_MSE%%lib/libckit.so.1
>+%%PLIST_MSE%%lib/libckit.so
>+%%PLIST_MSE%%lib/libckit.la
>+%%PLIST_MSE%%lib/libckit.a
>+%%PLIST_MSE%%bin/mse
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fclique.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fconsense.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fcontml.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fcontrast.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdiscboot.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnacomp.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnadist.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnainvar.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnaml.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnamlk.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnamove.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnapars.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnapenny.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdollop.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdolmove.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdolpenny.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdrawgram.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdrawtree.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffactor.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffitch.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffreqboot.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fgendist.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fkitsch.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fmix.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fmove.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fneighbor.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpars.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpenny.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fproml.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpromlk.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fprotdist.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fprotpars.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestboot.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestdist.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestml.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fretree.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fseqboot.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fseqbootall.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ftreedist.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ftreedistpair.acd
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fclique.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fconsense.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fcontml.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fcontrast.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdiscboot.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnacomp.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnadist.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnainvar.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnaml.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnamlk.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnapars.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnapenny.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdollop.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdolpenny.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdrawgram.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdrawtree.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffactor.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffitch.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffreqboot.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fgendist.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fkitsch.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fmix.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fmove.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fneighbor.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpars.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpenny.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fproml.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpromlk.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fprotdist.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fprotpars.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/frestboot.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/frestml.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fretree.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fseqboot.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fseqbootall.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ftreedist.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ftreedistpair.txt
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/index.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fclique.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fconsense.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fcontml.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fcontrast.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdiscboot.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnacomp.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnadist.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnainvar.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnaml.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnamlk.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapars.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapenny.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdollop.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdolpenny.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawgram.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawtree.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffactor.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffitch.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffreqboot.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fmix.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fgendist.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fkitsch.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fmove.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fneighbor.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpars.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpenny.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fproml.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpromlk.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fprotdist.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fprotpars.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/frestboot.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/frestml.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fretree.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fseqboot.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fseqbootall.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedist.html
>+%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedistpair.html
>+%%PLIST_PHYLIPNEW%%@dirrm share/EMBOSS/doc/html/embassy/phylipnew
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font1
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font2
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font3
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font4
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font5
>+%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font6
>+%%PLIST_PHYLIPNEW%%@dirrm share/PHYLIPNEW/data
>+%%PLIST_PHYLIPNEW%%@dirrm share/PHYLIPNEW
>+%%PLIST_PHYLIPNEW%%bin/fclique
>+%%PLIST_PHYLIPNEW%%bin/fconsense
>+%%PLIST_PHYLIPNEW%%bin/fcontml
>+%%PLIST_PHYLIPNEW%%bin/fcontrast
>+%%PLIST_PHYLIPNEW%%bin/fdnacomp
>+%%PLIST_PHYLIPNEW%%bin/fdnadist
>+%%PLIST_PHYLIPNEW%%bin/fdnainvar
>+%%PLIST_PHYLIPNEW%%bin/fdnaml
>+%%PLIST_PHYLIPNEW%%bin/fdnamlk
>+%%PLIST_PHYLIPNEW%%bin/fdnamove
>+%%PLIST_PHYLIPNEW%%bin/fdnapars
>+%%PLIST_PHYLIPNEW%%bin/fdnapenny
>+%%PLIST_PHYLIPNEW%%bin/fdolmove
>+%%PLIST_PHYLIPNEW%%bin/fdollop
>+%%PLIST_PHYLIPNEW%%bin/fdolpenny
>+%%PLIST_PHYLIPNEW%%bin/fdrawgram
>+%%PLIST_PHYLIPNEW%%bin/fdrawtree
>+%%PLIST_PHYLIPNEW%%bin/ffactor
>+%%PLIST_PHYLIPNEW%%bin/ffitch
>+%%PLIST_PHYLIPNEW%%bin/fgendist
>+%%PLIST_PHYLIPNEW%%bin/fkitsch
>+%%PLIST_PHYLIPNEW%%bin/fmix
>+%%PLIST_PHYLIPNEW%%bin/fmove
>+%%PLIST_PHYLIPNEW%%bin/fneighbor
>+%%PLIST_PHYLIPNEW%%bin/fpars
>+%%PLIST_PHYLIPNEW%%bin/fpenny
>+%%PLIST_PHYLIPNEW%%bin/fproml
>+%%PLIST_PHYLIPNEW%%bin/fpromlk
>+%%PLIST_PHYLIPNEW%%bin/fprotdist
>+%%PLIST_PHYLIPNEW%%bin/fprotpars
>+%%PLIST_PHYLIPNEW%%bin/frestdist
>+%%PLIST_PHYLIPNEW%%bin/frestml
>+%%PLIST_PHYLIPNEW%%bin/fretree
>+%%PLIST_PHYLIPNEW%%bin/fdiscboot
>+%%PLIST_PHYLIPNEW%%bin/ffreqboot
>+%%PLIST_PHYLIPNEW%%bin/frestboot
>+%%PLIST_PHYLIPNEW%%bin/fseqboot
>+%%PLIST_PHYLIPNEW%%bin/fseqbootall
>+%%PLIST_PHYLIPNEW%%bin/ftreedist
>+%%PLIST_PHYLIPNEW%%bin/ftreedistpair
> %%PLIST_TOPO%%share/EMBOSS/acd/topo.acd
>+%%PLIST_TOPO%%share/EMBOSS/doc/programs/text/topo.txt
> %%PLIST_TOPO%%share/EMBOSS/doc/html/embassy/topo/index.html
> %%PLIST_TOPO%%share/EMBOSS/doc/html/embassy/topo/topo.html
>-%%PLIST_TOPO%%share/EMBOSS/doc/programs/text/topo.txt
>-%%PLIST_VIENNA%%bin/vrnaalifold
>-%%PLIST_VIENNA%%bin/vrnacofoldpf
>-%%PLIST_VIENNA%%bin/vrnaevalpair
>-%%PLIST_VIENNA%%bin/vrnainverse
>-%%PLIST_VIENNA%%bin/vrnaalifoldpf
>-%%PLIST_VIENNA%%bin/vrnadistance
>-%%PLIST_VIENNA%%bin/vrnafold
>-%%PLIST_VIENNA%%bin/vrnalfold
>-%%PLIST_VIENNA%%bin/vrnacofold
>-%%PLIST_VIENNA%%bin/vrnaduplex
>-%%PLIST_VIENNA%%bin/vrnafoldpf
>-%%PLIST_VIENNA%%bin/vrnaplot
>-%%PLIST_VIENNA%%bin/vrnacofoldconc
>-%%PLIST_VIENNA%%bin/vrnaeval
>-%%PLIST_VIENNA%%bin/vrnaheat
>-%%PLIST_VIENNA%%bin/vrnasubopt
>+%%PLIST_TOPO%%@dirrm share/EMBOSS/doc/html/embassy/topo
>+%%PLIST_TOPO%%bin/topo
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnaalifold.acd
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnadistance.acd
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnafoldpf.acd
>@@ -405,6 +393,22 @@
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnacofoldpf.acd
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnafold.acd
> %%PLIST_VIENNA%%share/EMBOSS/acd/vrnapaln.acd
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifold.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifoldpf.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofold.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldconc.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldpf.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnadistance.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaduplex.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaeval.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaevalpair.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafold.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafoldpf.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaheat.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnainverse.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnalfold.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaplot.txt
>+%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnasubopt.txt
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/index.html
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaalifold.html
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaalifoldpf.html
>@@ -422,38 +426,53 @@
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnalfold.html
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaplot.html
> %%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnasubopt.html
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifold.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifoldpf.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofold.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldconc.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldpf.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnadistance.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaduplex.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaeval.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaevalpair.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafold.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafoldpf.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaheat.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnainverse.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnalfold.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaplot.txt
>-%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnasubopt.txt
>+%%PLIST_VIENNA%%@dirrm share/EMBOSS/doc/html/embassy/vienna
> %%PLIST_VIENNA%%lib/libviennarna.so.1
> %%PLIST_VIENNA%%lib/libviennarna.so
> %%PLIST_VIENNA%%lib/libviennarna.la
> %%PLIST_VIENNA%%lib/libviennarna.a
>-@dirrmtry share/EMBOSS/doc/html/embassy/vienna
>-@dirrmtry share/EMBOSS/doc/html/embassy/topo
>-@dirrmtry share/EMBOSS/doc/html/embassy/structure
>-@dirrmtry share/EMBOSS/doc/html/embassy/signature
>-@dirrmtry share/EMBOSS/doc/html/embassy/phylipnew
>-@dirrmtry share/EMBOSS/doc/html/embassy/myseq
>-@dirrmtry share/EMBOSS/doc/html/embassy/mse
>-@dirrmtry share/EMBOSS/doc/html/embassy/memenew
>-@dirrmtry share/EMBOSS/doc/html/embassy/hmmernew
>-@dirrmtry share/EMBOSS/doc/html/embassy/esim4
>-@dirrmtry share/EMBOSS/doc/html/embassy/emnu
>-@dirrmtry share/EMBOSS/doc/html/embassy/domsearch
>-@dirrmtry share/EMBOSS/doc/html/embassy/domalign
>-@dirrmtry share/EMBOSS/doc/html/embassy/domainatrix
>-@dirrmtry share/EMBOSS/doc/html/embassy
>+%%PLIST_VIENNA%%bin/vrnaalifold
>+%%PLIST_VIENNA%%bin/vrnacofoldpf
>+%%PLIST_VIENNA%%bin/vrnaevalpair
>+%%PLIST_VIENNA%%bin/vrnainverse
>+%%PLIST_VIENNA%%bin/vrnaalifoldpf
>+%%PLIST_VIENNA%%bin/vrnadistance
>+%%PLIST_VIENNA%%bin/vrnafold
>+%%PLIST_VIENNA%%bin/vrnalfold
>+%%PLIST_VIENNA%%bin/vrnacofold
>+%%PLIST_VIENNA%%bin/vrnaduplex
>+%%PLIST_VIENNA%%bin/vrnafoldpf
>+%%PLIST_VIENNA%%bin/vrnaplot
>+%%PLIST_VIENNA%%bin/vrnacofoldconc
>+%%PLIST_VIENNA%%bin/vrnaeval
>+%%PLIST_VIENNA%%bin/vrnaheat
>+%%PLIST_VIENNA%%bin/vrnasubopt
>+%%PLIST_MIRA%%share/EMBOSS/acd/emira.acd
>+%%PLIST_MIRA%%share/EMBOSS/acd/emiraest.acd
>+%%PLIST_MIRA%%bin/emira
>+%%PLIST_MIRA%%bin/emiraest
>+%%PLIST_IPRSCAN%%share/EMBOSS/acd/eiprscan.acd
>+%%PLIST_IPRSCAN%%bin/eiprscan
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/echlorop.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/elipop.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetnglyc.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetoglyc.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetphos.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/eprop.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/esignalp.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/etmhmm.acd
>+%%PLIST_CBSTOOLS%%share/EMBOSS/acd/eyinoyang.acd
>+%%PLIST_CBSTOOLS%%bin/esignalp
>+%%PLIST_CBSTOOLS%%bin/etmhmm
>+%%PLIST_CBSTOOLS%%bin/enetnglyc
>+%%PLIST_CBSTOOLS%%bin/enetoglyc
>+%%PLIST_CBSTOOLS%%bin/enetphos
>+%%PLIST_CBSTOOLS%%bin/eprop
>+%%PLIST_CBSTOOLS%%bin/eyinoyang
>+%%PLIST_CBSTOOLS%%bin/echlorop
>+%%PLIST_CBSTOOLS%%bin/elipop
>+@dirrm share/EMBOSS/doc/html/embassy
>+@dirrmtry share/EMBOSS/doc/html
>+@dirrmtry share/EMBOSS/doc
>+@dirrmtry share/EMBOSS
>+@dirrmtry share

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Attachments on bug 135376: 96713