Attachment 86010 Details for Bug 122374 – primer3.diff

[patch] primer3.diff

primer3.diff (text/x-diff; charset=us-ascii), 34.17 KB, created by Fernan Aguero on 2008-04-02 18:06:34 UTC

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Filename:

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Creator: Fernan Aguero

Created: 2008-04-02 18:06:34 UTC

Size: 34.17 KB

patch

obsolete

>diff -ruN --exclude CVS /usr/ports/biology/primer3/Makefile primer3/Makefile
>--- /usr/ports/biology/primer3/Makefile	Fri Dec 29 20:40:53 2006
>+++ primer3/Makefile	Wed Apr  2 14:01:15 2008
>@@ -6,17 +6,17 @@
> #
> 
> PORTNAME=	primer3
>-PORTVERSION=	1.0.1
>+PORTVERSION=	1.1.3
> CATEGORIES=	biology
>-MASTER_SITES=	${MASTER_SITE_SOURCEFORGE}
>-MASTER_SITE_SUBDIR=	${PORTNAME}
>-DISTNAME=	${PORTNAME}_${PORTVERSION}
>+MASTER_SITES=	SF
>+DISTNAME=	${PORTNAME}-${PORTVERSION}
> 
> MAINTAINER=	fernan@iib.unsam.edu.ar
> COMMENT=	Primer3 helps to choose primers for PCR reactions
> 
>+USE_GMAKE=	yes
> WRKSRC=		${WRKDIR}/${DISTNAME}/src
>-DOCUMENTS=	README.${PORTNAME}_${PORTVERSION}.txt example
>+DOCUMENTS=	README.txt example
> 
> post-patch:
> 	@${REINPLACE_CMD} \
>@@ -29,7 +29,7 @@
> do-install:
> 	@${INSTALL_PROGRAM} ${WRKSRC}/primer3_core ${PREFIX}/bin/primer3
> 	@${MKDIR} ${DATADIR}
>-	@${INSTALL_DATA} ${WRKDIR}/${DISTNAME}/Copyright.txt ${DATADIR}
>+	@${INSTALL_DATA} ${WRKDIR}/${DISTNAME}/COPYING.txt ${DATADIR}
> .if !defined(NOPORTDOCS)
> 	@${MKDIR} ${DOCSDIR}
> .for file in ${DOCUMENTS}
>@@ -42,6 +42,6 @@
> .endif
> 
> post-install:
>-	@${CAT} ${DATADIR}/Copyright.txt
>+	@${CAT} ${DATADIR}/COPYING.txt
> 
> .include <bsd.port.mk>
>diff -ruN --exclude CVS /usr/ports/biology/primer3/distinfo primer3/distinfo
>--- /usr/ports/biology/primer3/distinfo	Fri Dec 29 20:40:53 2006
>+++ primer3/distinfo	Wed Apr  2 14:01:15 2008
>@@ -1,3 +1,3 @@
>-MD5 (primer3_1.0.1.tar.gz) = 4fa33b8667cec1b88f1516d175eb1bed
>-SHA256 (primer3_1.0.1.tar.gz) = 2f7641d66d75b4830a01d31dbc96c61ffad2b1f047287009906902558a9e165e
>-SIZE (primer3_1.0.1.tar.gz) = 902576
>+MD5 (primer3-1.1.3.tar.gz) = 3d027d5dcbdb88c0f9622938f9d38534
>+SHA256 (primer3-1.1.3.tar.gz) = ad3071fd1a8da8caae6f30b799cae4b7e53f00476ca0441b37bddf8995d1fa38
>+SIZE (primer3-1.1.3.tar.gz) = 943678
>diff -ruN --exclude CVS /usr/ports/biology/primer3/pkg-plist primer3/pkg-plist
>--- /usr/ports/biology/primer3/pkg-plist	Fri Dec 29 20:40:53 2006
>+++ primer3/pkg-plist	Wed Apr  2 14:02:01 2008
>@@ -1,7 +1,7 @@
> bin/primer3
>-%%PORTDOCS%%%%DOCSDIR%%/README.primer3_1.0.1.txt
>+%%PORTDOCS%%%%DOCSDIR%%/README.txt
> %%PORTDOCS%%%%DOCSDIR%%/example
>-%%PORTDOCS%%%%EXAMPLESDIR%%/dpal_gen.pl
>+%%PORTDOCS%%%%EXAMPLESDIR%%/Makefile
> %%PORTDOCS%%%%EXAMPLESDIR%%/dpal_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/dpal_long_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/dpal_long_score_output
>@@ -14,20 +14,14 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/not_for_production.lib
> %%PORTDOCS%%%%EXAMPLESDIR%%/not_for_production_Ns.lib
> %%PORTDOCS%%%%EXAMPLESDIR%%/not_for_production_Xs.lib
>+%%PORTDOCS%%%%EXAMPLESDIR%%/oligotm.txt
>+%%PORTDOCS%%%%EXAMPLESDIR%%/oligotm_test.pl
> %%PORTDOCS%%%%EXAMPLESDIR%%/p3-tmpl-mispriming_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/p3-tmpl-mispriming_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/p3test.pl
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_input
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/AGAG.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/AGAG.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.int
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/long_seq.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/long_seq.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP01-02.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP01-02.txt.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP01-03.txt.for
>@@ -40,8 +34,16 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP01-21.txt.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP04-07.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/SP04-07.txt.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.int
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/included_test_w_middle.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/long_seq.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/long_seq.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/targets_test.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last/targets_test.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer1_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_boundary1_formatted_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_boundary1_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_boundary1_output
>@@ -52,224 +54,236 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_check_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_end_pathology_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_end_pathology_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_1.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_2.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_2.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_3.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_3.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_4.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_divalent_dntp_conc_4.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_dna_conc.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_dna_conc.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_dna_conc.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_1.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_2.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_2.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_3.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_3.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_4.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_4.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_1.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_2.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_2.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_3.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_3.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_1.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_2.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_2.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_3.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_3.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_1.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_2.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_2.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_3.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_3.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_4.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_4.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_salt_conc.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_salt_conc.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_salt_conc.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_1.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_1.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_product_size.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_product_size.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_product_size.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/gc_clamp_min_size.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/gc_clamp_min_size.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/gc_clamp_min_size.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/incorrect_task.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/incorrect_task.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/incorrect_task.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_gc_content_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_gc_content_obj_fn.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_gc_content_obj_fn.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_obj_fn.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_obj_fn.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm_int.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_limit_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_limit_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_limit_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product_int.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mishyb_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mishyb_obj_fn.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mishyb_obj_fn.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mispr_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mispr_obj_fn.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mispr_obj_fn.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_equal.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_equal.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_equal.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_terminal_equal.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_terminal_equal.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_terminal_equal.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size_int.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size_int.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size_int.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size_int.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pair_mispr.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pr_gc_content_obj_fn.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_size_obj_fn.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_tm_obj_fn.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err1.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err2.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err3.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err4.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err5.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err6.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err1.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err2.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err3.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err4.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err5.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err6.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality1.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality2.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality3.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality4.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/too_many_product_sizes.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_min_size.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_num_return.in
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_dna_conc.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_4.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_4.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_salt_conc.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_product_size.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/gc_clamp_min_size.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/incorrect_task.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_gc_content_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_limit_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mishyb_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mispr_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_equal.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_terminal_equal.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size_int.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pair_mispr.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pr_gc_content_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_size_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_tm_obj_fn.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err4.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err5.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err6.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err4.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err5.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err6.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality1.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality2.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality3.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality4.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/too_many_product_sizes.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_min_size.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_num_return.out
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_dna_conc.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_1.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_2.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_3.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_float_4.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_1.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_2.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_3.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_1.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_2.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_gc_int_3.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_num_ns.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_1.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_2.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_3.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_product_sizes_4.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_salt_conc.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_any.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/bad_self_end.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_1.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/empty_product_size.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/gc_clamp_min_size.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/incorrect_task.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_gc_content_obj_fn.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/io_obj_fn.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_min_tm.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_opt_tm.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/MAX_PRIMER_LENGTH.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_limit_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/max_size_min_product.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/min_opt_tm.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mishyb_obj_fn.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/mispr_obj_fn.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_equal.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/no_terminal_equal.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_max_size.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size_int.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/opt_min_size.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pair_mispr.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pair_mispr.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pair_mispr.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pr_gc_content_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pr_gc_content_obj_fn.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/pr_gc_content_obj_fn.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_size_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_size_obj_fn.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_size_obj_fn.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_tm_obj_fn.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_tm_obj_fn.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/product_tm_obj_fn.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err1.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err1.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err2.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err2.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err3.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err3.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err4.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err4.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err5.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err5.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err5.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err6.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err6.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err6.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_err.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.out
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err1.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err1.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err2.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err2.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err3.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err3.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err4.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err4.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err5.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err5.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err5.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err6.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err6.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err6.out2
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/repeat_lib_int_err.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality1.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality1.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality1.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality2.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality2.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality2.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality3.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality3.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality3.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality4.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality4.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/seq_quality4.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/too_many_product_sizes.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/too_many_product_sizes.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/too_many_product_sizes.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_min_size.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_min_size.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_min_size.out2
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_num_return.in
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_num_return.out
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err/zero_num_return.out2
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_human_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_human_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_input
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal1_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal1_formatted_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal1_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal1_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal_formatted_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_internal_input
>@@ -278,22 +292,10 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_lib_amb_codes_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/AGAG.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/AGAG.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/case_problem_test.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/case_problem_test.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.int
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/long_seq.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/long_seq.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-02.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-02.txt.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-03.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-03.txt.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06.txt.for
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06.txt.rev
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-19.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat1.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat1.int
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat1.rev
>@@ -303,18 +305,29 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat3.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat3.int
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06-with-repeat3.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06.txt.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-06.txt.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-19.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-19.txt.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-21.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP01-21.txt.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP04-07.txt.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/SP04-07.txt.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/case_problem_test.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/case_problem_test.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.int
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/included_test_w_middle.rev
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/long_seq.for
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/long_seq.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/targets_test.for
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last/targets_test.rev
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary1_formatted_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary1_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary1_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary2_formatted_output
>-%%PORTDOCS%%%%EXAMPLESDIR%%/primer_obj_fn_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary2_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_boundary2_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_mispriming_formatted_output
>@@ -327,8 +340,8 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_must_use_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_num_best_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_num_best_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_obj_fn_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_obj_fn_output
>-%%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib1
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_position_penalty_formatted_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_position_penalty_input
>@@ -347,15 +360,20 @@
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_task_formatted_output
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_task_input
> %%PORTDOCS%%%%EXAMPLESDIR%%/primer_task_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_tm_lc_masking_formatted_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_tm_lc_masking_input
>+%%PORTDOCS%%%%EXAMPLESDIR%%/primer_tm_lc_masking_output
>+%%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib1
> %%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib2
> %%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib3
> %%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib4
> %%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib5
> %%PORTDOCS%%%%EXAMPLESDIR%%/repeat_lib6
>-%%DATADIR%%/Copyright.txt
>-%%PORTDOCS%%@dirrm %%DOCSDIR%%
>-@dirrm %%EXAMPLESDIR%%/primer1_list_last
>-@dirrm %%EXAMPLESDIR%%/primer_global_err
>-@dirrm %%EXAMPLESDIR%%/primer_list_last
>-@dirrm %%EXAMPLESDIR%%
>+%%PORTDOCS%%%%EXAMPLESDIR%%/vgrep.pl
>+%%DATADIR%%/COPYING.txt
> @dirrm %%DATADIR%%
>+@dirrm %%PORTDOCS%%%%EXAMPLESDIR%%/primer_list_last
>+@dirrm %%PORTDOCS%%%%EXAMPLESDIR%%/primer_global_err
>+@dirrm %%PORTDOCS%%%%EXAMPLESDIR%%/primer1_list_last
>+@dirrm %%PORTDOCS%%%%EXAMPLESDIR%%
>+@dirrm %%PORTDOCS%%%%DOCSDIR%%

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Attachments on bug 122374: 86009 | 86010