Update to 3.27.

Use GCC 3.3 on systems with 3.4, due to an internal compiler error.

PR:		ports/93050
Submitted by:	Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)

3 files changed, 18 insertions, 10 deletions

diff --git a/biology/t_coffee/Makefile b/biology/t_coffee/Makefile
index 4e5c42e7afd1..c3e1cd994411 100644
--- a/biology/t_coffee/Makefile
+++ b/biology/t_coffee/Makefile
@@ -7,7 +7,7 @@
 #
 
 PORTNAME=	t_coffee
-PORTVERSION=	3.18
+PORTVERSION=	3.27
 CATEGORIES=	biology
 MASTER_SITES=	http://igs-server.cnrs-mrs.fr/~cnotred/Packages/
 DISTNAME=	T-COFFEE_distribution_Version_${PORTVERSION}
@@ -25,25 +25,25 @@ MAKE_ENV=	MV=${MV} USER_BIN=${PREFIX}/bin \
 MAKEFILE=	makefile
 
 do-install:
-	@ ${INSTALL_PROGRAM} ${WRKSRC}/bin/t_coffee ${PREFIX}/bin
+	${INSTALL_PROGRAM} ${WRKSRC}/bin/t_coffee ${PREFIX}/bin
 
 post-install:
 .if !defined(NOPORTDOCS)
 	@ ${MKDIR} ${DOCSDIR}
-	@ ${INSTALL_DATA} ${WRKSRC}/doc/* ${DOCSDIR}
+	${INSTALL_DATA} ${WRKSRC}/doc/* ${DOCSDIR}
 	@ ${MKDIR} ${EXAMPLESDIR}
 	@ cd ${WRKSRC}/example && ${FIND} * \
 	  | ${CPIO} --quiet -pdum -R ${SHAREOWN}:${SHAREGRP} ${EXAMPLESDIR}
 	@ ${MKDIR} ${DATADIR}
-	@ ${INSTALL_DATA} ${WRKSRC}/license.txt ${DATADIR}
+	${INSTALL_DATA} ${WRKSRC}/license.txt ${DATADIR}
 	@ ${MKDIR} ${DATADIR}/html
-	@ ${INSTALL_DATA} ${WRKSRC}/html/* ${DATADIR}/html
+	${INSTALL_DATA} ${WRKSRC}/html/* ${DATADIR}/html
 .endif
 
 .include <bsd.port.pre.mk>
 
-.if ${OSVERSION} >= 600000
-BROKEN=		"Does not build on FreeBSD >= 6.x"
+.if ${OSVERSION} > 502126
+USE_GCC=3.3
 .endif
 
 .include <bsd.port.post.mk>
diff --git a/biology/t_coffee/distinfo b/biology/t_coffee/distinfo
index 4c8f07bac74e..cde81b662a5c 100644
--- a/biology/t_coffee/distinfo
+++ b/biology/t_coffee/distinfo
@@ -1,3 +1,3 @@
-MD5 (T-COFFEE_distribution_Version_3.18.tar.gz) = e671383b9e6b90ded56c615acd2f51c4
-SHA256 (T-COFFEE_distribution_Version_3.18.tar.gz) = e6769bbfecbcd4a00493564ab8e08aefd0d89c7452e5b30114d0d8aec4d36aee
-SIZE (T-COFFEE_distribution_Version_3.18.tar.gz) = 1540558
+MD5 (T-COFFEE_distribution_Version_3.27.tar.gz) = 747d907f4b87e07d7b1e670a2b263e23
+SHA256 (T-COFFEE_distribution_Version_3.27.tar.gz) = ffb7920919b24a6144492bec71580cda8a3ef4698acf762f76ebadfcae9aa01a
+SIZE (T-COFFEE_distribution_Version_3.27.tar.gz) = 1295287
diff --git a/biology/t_coffee/files/patch-Makefile b/biology/t_coffee/files/patch-Makefile
new file mode 100644
index 000000000000..5cf4496b912f
--- /dev/null
+++ b/biology/t_coffee/files/patch-Makefile
@@ -0,0 +1,8 @@
+--- t_coffee_source/makefile.orig	Tue Feb  7 15:11:00 2006
++++ t_coffee_source/makefile	Tue Feb  7 15:10:36 2006
+@@ -1,4 +1,4 @@
+-CC=cc
++#CC=cc
+ t_coffee: util_constraints_list.o util_job_handling.o util_dps.o util_domain_constraints_list.o util_analyse_constraints_list.o aln_convertion_util.o util_declare.o hsearch.o random.o util_make_tree.o util.o reformat_struc.o reformat.o aln_compare.o io_func.o pb_util_read_sequence.o pb_util_read_seq_util.o tree_util.o util_graph_maln.o util_dp_clean_maln.o util_dp_ssec_pwaln.o util_dp_sim.o util_dp_mm_nw.o util_dp_gotoh_nw.o util_dp_suboptimal_nw.o util_dp_cdna_fasta_nw.o util_dp_generic_fasta_nw.o util_ dp_fasta_nw.o util_dp_fasta_sw.o util_dp_gotoh_sw.o util_dp_est.o util_domain_dp_drivers.o util_dp_drivers.o util_domain_dp.o CUSTOM_evaluate_for_struc.o evaluate_for_struc.o evaluate_for_domain.o evaluate_dirichlet.o evaluate.o showpair.o fsa_dp.o pavie_dp.o t_coffee.o 
+ 	$(CC)  -o t_coffee util_constraints_list.o util_job_handling.o util_dps.o util_domain_constraints_list.o util_analyse_constraints_list.o aln_convertion_util.o util_declare.o hsearch.o random.o util_make_tree.o util.o reformat_struc.o reformat.o aln_compare.o io_func.o pb_util_read_sequence.o pb_util_read_seq_util.o tree_util.o util_graph_maln.o util_dp_clean_maln.o util_dp_ssec_pwaln.o util_dp_sim.o util_dp_mm_nw.o util_dp_gotoh_nw.o util_dp_suboptimal_nw.o util_dp_cdna_fasta_nw.o util_dp_generic_fasta_ nw.o util_dp_fasta_nw.o util_dp_fasta_sw.o util_dp_gotoh_sw.o util_dp_est.o util_domain_dp_drivers.o util_dp_drivers.o util_domain_dp.o CUSTOM_evaluate_for_struc.o evaluate_for_struc.o evaluate_for_domain.o evaluate_dirichlet.o evaluate.o showpair.o fsa_dp.o pavie_dp.o t_coffee.o  -lm
+ 	mv  t_coffee  ../bin