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| author |   Robin H. Johnson <robbat2@gentoo.org> | 2015-08-08 13:49:04 -0700 |
|---|---|---|
| committer | Robin H. Johnson <robbat2@gentoo.org> | 2015-08-08 17:38:18 -0700 |
| commit | 56bd759df1d0c750a065b8c845e93d5dfa6b549d (patch) | |
| tree | 3f91093cdb475e565ae857f1c5a7fd339e2d781e /sci-biology/mummer/files | |
| download | gentoo-56bd759df1d0c750a065b8c845e93d5dfa6b549d.tar.gz gentoo-56bd759df1d0c750a065b8c845e93d5dfa6b549d.tar.bz2 gentoo-56bd759df1d0c750a065b8c845e93d5dfa6b549d.zip | |
proj/gentoo: Initial commit
This commit represents a new era for Gentoo:
Storing the gentoo-x86 tree in Git, as converted from CVS.
This commit is the start of the NEW history.
Any historical data is intended to be grafted onto this point.
Creation process:
1. Take final CVS checkout snapshot
2. Remove ALL ChangeLog* files
3. Transform all Manifests to thin
4. Remove empty Manifests
5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$
5.1. Do not touch files with -kb/-ko keyword flags.
Signed-off-by: Robin H. Johnson <robbat2@gentoo.org>
X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests
X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project
X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration
X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn
X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts
X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration
X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed
Diffstat (limited to 'sci-biology/mummer/files')
| -rw-r--r-- | sci-biology/mummer/files/3.22-ldflags.patch | 16 | ||||
| -rw-r--r-- | sci-biology/mummer/files/3.22-prll.patch | 56 | ||||
| -rw-r--r-- | sci-biology/mummer/files/mummer-3.20-gcc43.patch | 12 |
3 files changed, 84 insertions, 0 deletions
diff --git a/sci-biology/mummer/files/3.22-ldflags.patch b/sci-biology/mummer/files/3.22-ldflags.patch new file mode 100644 index 000000000000..d3c4a60a1adb --- /dev/null +++ b/sci-biology/mummer/files/3.22-ldflags.patch @@ -0,0 +1,16 @@ +diff --git a/src/tigr/Makefile b/src/tigr/Makefile +index cf6b9ca..5b28d1e 100644 +--- a/src/tigr/Makefile ++++ b/src/tigr/Makefile +@@ -9,9 +9,9 @@ AUX_BIN_DIR := $(CURDIR) + endif + + OBJ_RULE = $(CXX) $(CXXFLAGS) $< -c -o $@ +-BIN_RULE = $(CXX) $(CXXFLAGS) $^ -o $(BIN_DIR)/$@; \ ++BIN_RULE = $(CXX) $(LDFLAGS) $(CXXFLAGS) $^ -o $(BIN_DIR)/$@; \ + chmod 755 $(BIN_DIR)/$@ +-AUX_BIN_RULE = $(CXX) $(CXXFLAGS) $^ -o $(AUX_BIN_DIR)/$@; \ ++AUX_BIN_RULE = $(CXX) $(LDFLAGS) $(CXXFLAGS) $^ -o $(AUX_BIN_DIR)/$@; \ + chmod 755 $(AUX_BIN_DIR)/$@ + VPATH := $(AUX_BIN_DIR):$(BIN_DIR) + diff --git a/sci-biology/mummer/files/3.22-prll.patch b/sci-biology/mummer/files/3.22-prll.patch new file mode 100644 index 000000000000..3b24ee40214a --- /dev/null +++ b/sci-biology/mummer/files/3.22-prll.patch @@ -0,0 +1,56 @@ +diff --git a/Makefile b/Makefile +index 4db4977..bbd00ed 100644 +--- a/Makefile ++++ b/Makefile +@@ -114,15 +114,15 @@ install: all + + + kurtz: +- cd $(KURTZ_SRC_DIR); $(MAKE) mummer ++ $(MAKE) -C $(KURTZ_SRC_DIR) mummer + + + scripts: +- cd $(SCRIPT_DIR); $(MAKE) all ++ $(MAKE) -C $(SCRIPT_DIR) all + + + tigr: +- cd $(TIGR_SRC_DIR); $(MAKE) all ++ $(MAKE) -C $(TIGR_SRC_DIR) all + + + uninstall: clean +diff --git a/src/kurtz/Makefile b/src/kurtz/Makefile +index 85dfc16..5bff793 100644 +--- a/src/kurtz/Makefile ++++ b/src/kurtz/Makefile +@@ -1,7 +1,7 @@ + all: +- cd libbasedir; $(MAKE) all +- cd streesrc; $(MAKE) all +- cd mm3src; $(MAKE) all ++ $(MAKE) -C libbasedir all ++ $(MAKE) -C streesrc all ++ $(MAKE) -C mm3src all + + clean: + rm -f *~ +@@ -10,11 +10,11 @@ clean: + cd mm3src; $(MAKE) clean + + mummer: +- cd libbasedir; $(MAKE) libbase.a +- cd streesrc; $(MAKE) libstree.a +- cd mm3src; $(MAKE) mummer ++ $(MAKE) -C libbasedir libbase.a ++ $(MAKE) -C streesrc libstree.a ++ $(MAKE) -C mm3src mummer + + splintall: +- cd libbasedir; ${MAKE} splintall +- cd streesrc; ${MAKE} splintall +- cd mm3src; ${MAKE} splintall ++ $(MAKE) -C libbasedir splintall ++ $(MAKE) -C streesrc splintall ++ $(MAKE) -C mm3src splintall diff --git a/sci-biology/mummer/files/mummer-3.20-gcc43.patch b/sci-biology/mummer/files/mummer-3.20-gcc43.patch new file mode 100644 index 000000000000..4d3edb41e46a --- /dev/null +++ b/sci-biology/mummer/files/mummer-3.20-gcc43.patch @@ -0,0 +1,12 @@ +--- src/tigr/show-diff.cc.orig 2008-06-16 17:55:34.000000000 +0000 ++++ src/tigr/show-diff.cc 2008-06-16 17:56:25.000000000 +0000 +@@ -14,6 +14,8 @@ + #include <cstdlib> + #include <cassert> + #include <climits> ++#include <algorithm> ++ + using namespace std; + + + |