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author | Jakov Smolić <jsmolic@gentoo.org> | 2021-08-30 19:15:43 +0200 |
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committer | Jakov Smolić <jsmolic@gentoo.org> | 2021-08-30 19:38:48 +0200 |
commit | 5781aaa8b6bccd389d6520199e68819a84969412 (patch) | |
tree | 2d4c70276adc38504afb8f8c69b1fd65b6555bec /sci-biology/psipred/files | |
parent | profiles/arch/amd64/no-multilib: Remove sci-chemistry/mars p.mask entry (diff) | |
download | gentoo-5781aaa8b6bccd389d6520199e68819a84969412.tar.gz gentoo-5781aaa8b6bccd389d6520199e68819a84969412.tar.bz2 gentoo-5781aaa8b6bccd389d6520199e68819a84969412.zip |
sci-biology/psipred: Remove last-rited package
Signed-off-by: Jakov Smolić <jsmolic@gentoo.org>
Diffstat (limited to 'sci-biology/psipred/files')
-rw-r--r-- | sci-biology/psipred/files/3.1-Makefile.patch | 38 | ||||
-rw-r--r-- | sci-biology/psipred/files/3.1-path.patch | 38 | ||||
-rw-r--r-- | sci-biology/psipred/files/3.2-fgets.patch | 13 |
3 files changed, 0 insertions, 89 deletions
diff --git a/sci-biology/psipred/files/3.1-Makefile.patch b/sci-biology/psipred/files/3.1-Makefile.patch deleted file mode 100644 index 0c70b6868565..000000000000 --- a/sci-biology/psipred/files/3.1-Makefile.patch +++ /dev/null @@ -1,38 +0,0 @@ -diff --git a/src/Makefile b/src/Makefile -index abed8af..26061fa 100644 ---- a/src/Makefile -+++ b/src/Makefile -@@ -6,9 +6,9 @@ - #### CFLAGS Flags to pass to C compiler. - - INCDIR = . --CC = cc -+CC ?= gcc - --CFLAGS = -O -+CFLAGS ?= -O2 - LIBS = -lm - - all: psipred psipass2 chkparse seq2mtx pfilt -@@ -20,16 +20,16 @@ clean: - /bin/rm -f psipred psipass2 chkparse seq2mtx pfilt - - psipred: sspred_avpred.c ssdefs.h sspred_net.h -- $(CC) $(CFLAGS) sspred_avpred.c $(LIBS) -o psipred -+ $(CC) $(CFLAGS) $(LDFLAGS) sspred_avpred.c $(LIBS) -o psipred - - psipass2: sspred_hmulti.c ssdefs.h sspred_net2.h -- $(CC) $(CFLAGS) sspred_hmulti.c $(LIBS) -o psipass2 -+ $(CC) $(CFLAGS) $(LDFLAGS) sspred_hmulti.c $(LIBS) -o psipass2 - - chkparse: chkparse.c -- $(CC) $(CFLAGS) chkparse.c $(LIBS) -o chkparse -+ $(CC) $(CFLAGS) $(LDFLAGS) chkparse.c $(LIBS) -o chkparse - - seq2mtx: seq2mtx.c -- $(CC) $(CFLAGS) seq2mtx.c $(LIBS) -o seq2mtx -+ $(CC) $(CFLAGS) $(LDFLAGS) seq2mtx.c $(LIBS) -o seq2mtx - - pfilt: pfilt.c -- $(CC) $(CFLAGS) pfilt.c $(LIBS) -o pfilt -+ $(CC) $(CFLAGS) $(LDFLAGS) pfilt.c $(LIBS) -o pfilt diff --git a/sci-biology/psipred/files/3.1-path.patch b/sci-biology/psipred/files/3.1-path.patch deleted file mode 100644 index 564e9c8a1ef9..000000000000 --- a/sci-biology/psipred/files/3.1-path.patch +++ /dev/null @@ -1,38 +0,0 @@ -diff --git a/runpsipred b/runpsipred -index 4ccf44e..34dee99 100755 ---- a/runpsipred -+++ b/runpsipred -@@ -14,13 +14,13 @@ - set dbname = uniref90filt - - # Where the NCBI programs have been installed --set ncbidir = /usr/local/bin -+set ncbidir = @GENTOO_PORTAGE_EPREFIX@/usr/bin - - # Where the PSIPRED V2 programs have been installed --set execdir = ./bin -+set execdir = @GENTOO_PORTAGE_EPREFIX@/usr/bin - - # Where the PSIPRED V2 data files have been installed --set datadir = ./data -+set datadir = @GENTOO_PORTAGE_EPREFIX@/usr/share/psipred/data - - set basename = $1:r - set rootname = $basename:t -diff --git a/runpsipred_single b/runpsipred_single -index 1f7680b..7bd5bc3 100755 ---- a/runpsipred_single -+++ b/runpsipred_single -@@ -10,10 +10,10 @@ - # NOTE: Script modified to be more cluster friendly (DTJ April 2008) - - # Where the PSIPRED V3 programs have been installed --set execdir = ./bin -+set execdir = @GENTOO_PORTAGE_EPREFIX@/usr/bin - - # Where the PSIPRED V3 data files have been installed --set datadir = ./data -+set datadir = @GENTOO_PORTAGE_EPREFIX@/usr/share/psipred/data - - set basename = $1:r - set rootname = $basename:t diff --git a/sci-biology/psipred/files/3.2-fgets.patch b/sci-biology/psipred/files/3.2-fgets.patch deleted file mode 100644 index ec06d141ee34..000000000000 --- a/sci-biology/psipred/files/3.2-fgets.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/src/sspred_avpred.c b/src/sspred_avpred.c -index 37b1332..4f04ab6 100644 ---- a/src/sspred_avpred.c -+++ b/src/sspred_avpred.c -@@ -223,7 +223,7 @@ predict(int argc, char **argv) - int getmtx(FILE *lfil) - { - int aa, i, j, naa; -- char buf[256], *p; -+ char buf[65536], *p; - - if (fscanf(lfil, "%d", &naa) != 1) - fail("Bad mtx file - no sequence length!"); |