sci-biology/psipred: remove unused patches

Closes: https://github.com/gentoo/gentoo/pull/3708

diff --git a/sci-biology/psipred/files/2.6.1-Makefile.patch b/sci-biology/psipred/files/2.6.1-Makefile.patch
deleted file mode 100644 (file)
index 0a6df74..0000000
--- a/sci-biology/psipred/files/2.6.1-Makefile.patch
+++ /dev/null
@@ -1,42 +0,0 @@
---- src/Makefile       2008-03-09 22:59:51.000000000 +0100
-+++ src/Makefile.new   2009-04-09 12:31:38.669457918 +0200
-@@ -6,9 +6,7 @@
- #### CFLAGS   Flags to pass to C compiler.
- 
- INCDIR                = .
--CC            = cc
- 
--CFLAGS                = -O
- LIBS          = -lm
- 
- all:          psipred psipass2 seq2mtx pfilt
-@@ -20,13 +18,13 @@
-               /bin/rm -f psipred psipass2 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
- 
- 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
---- src/Makefile       2009-04-09 12:34:41.636939862 +0200
-+++ src/Makefile.new   2009-04-09 12:36:03.796098341 +0200
-@@ -12,7 +12,8 @@
- all:          psipred psipass2 seq2mtx pfilt
- 
- install:
--              /bin/cp psipred psipass2 seq2mtx pfilt ../bin
-+              /bin/mkdir -p $(DESTDIR)/usr/bin
-+              /bin/cp psipred psipass2 seq2mtx pfilt $(DESTDIR)/usr/bin
- 
- clean:
-               /bin/rm -f psipred psipass2 seq2mtx pfilt

diff --git a/sci-biology/psipred/files/2.6.1-path.patch b/sci-biology/psipred/files/2.6.1-path.patch
deleted file mode 100644 (file)
index 9b8d6b9..0000000
--- a/sci-biology/psipred/files/2.6.1-path.patch
+++ /dev/null
@@ -1,34 +0,0 @@
---- runpsipred 2008-04-05 00:14:36.000000000 +0200
-+++ runpsipred.new     2009-04-09 12:40:46.376203036 +0200
-@@ -14,13 +14,13 @@
- set dbname = nr
- 
- # 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
---- runpsipred_single  2008-04-05 00:14:38.000000000 +0200
-+++ runpsipred_single.new      2009-04-09 12:41:10.086067082 +0200
-@@ -10,10 +10,10 @@
- # NOTE: Script modified to be more cluster friendly (DTJ April 2008)
- 
- # 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/sci-biology/psipred/files/3.0-path.patch b/sci-biology/psipred/files/3.0-path.patch
deleted file mode 100644 (file)
index ebf9b2a..0000000
--- a/sci-biology/psipred/files/3.0-path.patch
+++ /dev/null
@@ -1,38 +0,0 @@
-diff --git a/runpsipred b/runpsipred
-index e133686..6ad57cc 100755
---- a/runpsipred
-+++ b/runpsipred
-@@ -14,13 +14,13 @@
- set dbname = uniref90
- 
- # Where the NCBI programs have been installed
--set ncbidir = /usr/local/bin
-+set ncbidir = @GENTOO_PORTAGE_EPREFIX@/usr/bin
- 
- # 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/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