Browse code

Update of gc; version number bumped to 1.31.1

UBod authored on 05/12/2022 11:55:56
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@@ -6,46 +6,46 @@ rm -rf src/*.a
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 rm -rf src/*.o
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 rm -rf src/*.rds
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-## gc-7.6.12
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-rm -rf src/gc-7.6.12/.deps
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-rm -rf src/gc-7.6.12/.libs
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-rm -rf src/gc-7.6.12/*.o
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-rm -rf src/gc-7.6.12/*.la
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-rm -rf src/gc-7.6.12/*.lo
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-rm -rf src/gc-7.6.12/Makefile
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-rm -rf src/gc-7.6.12/bdw-gc.pc
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-rm -rf src/gc-7.6.12/config.log
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-rm -rf src/gc-7.6.12/config.status
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-rm -rf src/gc-7.6.12/cord/.deps
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-rm -rf src/gc-7.6.12/cord/.libs
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-rm -rf src/gc-7.6.12/cord/*.o
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-rm -rf src/gc-7.6.12/cord/*.lo
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-rm -rf src/gc-7.6.12/cord/*.la
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-rm -rf src/gc-7.6.12/include/private/config.h
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-rm -rf src/gc-7.6.12/include/private/stamp-h1
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-rm -rf src/gc-7.6.12/libatomic_ops/Makefile
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-rm -rf src/gc-7.6.12/libatomic_ops/config.log
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-rm -rf src/gc-7.6.12/libatomic_ops/config.status
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-rm -rf src/gc-7.6.12/libatomic_ops/doc/Makefile
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-rm -rf src/gc-7.6.12/libatomic_ops/pkgconfig/atomic_ops-uninstalled.pc
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-rm -rf src/gc-7.6.12/libatomic_ops/pkgconfig/atomic_ops.pc
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-rm -rf src/gc-7.6.12/libatomic_ops/src/.deps
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-rm -rf src/gc-7.6.12/libatomic_ops/src/.libs
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-rm -rf src/gc-7.6.12/libatomic_ops/src/*.o
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-rm -rf src/gc-7.6.12/libatomic_ops/src/*.la
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-rm -rf src/gc-7.6.12/libatomic_ops/src/*.lo
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-rm -rf src/gc-7.6.12/libatomic_ops/src/.dirstamp
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-rm -rf src/gc-7.6.12/libatomic_ops/src/Makefile
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-rm -rf src/gc-7.6.12/libatomic_ops/src/atomic_ops/Makefile
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-rm -rf src/gc-7.6.12/libatomic_ops/src/atomic_ops/sysdeps/Makefile
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-rm -rf src/gc-7.6.12/libatomic_ops/src/config.h
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-rm -rf src/gc-7.6.12/libatomic_ops/src/stamp-h1
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-rm -rf src/gc-7.6.12/libatomic_ops/tests/.deps
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-rm -rf src/gc-7.6.12/libatomic_ops/tests/Makefile
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-rm -rf src/gc-7.6.12/libtool
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-rm -rf src/gc-7.6.12/tests/.deps
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-rm -rf src/gc-7.6.12/cord/.dirstamp
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-rm -rf src/gc-7.6.12/m4/lt~obsolete.m4
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+## gc-8.2.2
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+rm -rf src/gc-8.2.2/.deps
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+rm -rf src/gc-8.2.2/.libs
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+rm -rf src/gc-8.2.2/*.o
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+rm -rf src/gc-8.2.2/*.la
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+rm -rf src/gc-8.2.2/*.lo
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+rm -rf src/gc-8.2.2/Makefile
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+rm -rf src/gc-8.2.2/bdw-gc.pc
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+rm -rf src/gc-8.2.2/config.log
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+rm -rf src/gc-8.2.2/config.status
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+rm -rf src/gc-8.2.2/cord/.deps
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+rm -rf src/gc-8.2.2/cord/.libs
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+rm -rf src/gc-8.2.2/cord/*.o
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+rm -rf src/gc-8.2.2/cord/*.lo
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+rm -rf src/gc-8.2.2/cord/*.la
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+rm -rf src/gc-8.2.2/include/private/config.h
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+rm -rf src/gc-8.2.2/include/private/stamp-h1
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+rm -rf src/gc-8.2.2/libatomic_ops/Makefile
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+rm -rf src/gc-8.2.2/libatomic_ops/config.log
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+rm -rf src/gc-8.2.2/libatomic_ops/config.status
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+rm -rf src/gc-8.2.2/libatomic_ops/doc/Makefile
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+rm -rf src/gc-8.2.2/libatomic_ops/pkgconfig/atomic_ops-uninstalled.pc
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+rm -rf src/gc-8.2.2/libatomic_ops/pkgconfig/atomic_ops.pc
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+rm -rf src/gc-8.2.2/libatomic_ops/src/.deps
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+rm -rf src/gc-8.2.2/libatomic_ops/src/.libs
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+rm -rf src/gc-8.2.2/libatomic_ops/src/*.o
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+rm -rf src/gc-8.2.2/libatomic_ops/src/*.la
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+rm -rf src/gc-8.2.2/libatomic_ops/src/*.lo
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+rm -rf src/gc-8.2.2/libatomic_ops/src/.dirstamp
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+rm -rf src/gc-8.2.2/libatomic_ops/src/Makefile
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+rm -rf src/gc-8.2.2/libatomic_ops/src/atomic_ops/Makefile
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+rm -rf src/gc-8.2.2/libatomic_ops/src/atomic_ops/sysdeps/Makefile
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+rm -rf src/gc-8.2.2/libatomic_ops/src/config.h
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+rm -rf src/gc-8.2.2/libatomic_ops/src/stamp-h1
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+rm -rf src/gc-8.2.2/libatomic_ops/tests/.deps
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+rm -rf src/gc-8.2.2/libatomic_ops/tests/Makefile
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+rm -rf src/gc-8.2.2/libtool
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+rm -rf src/gc-8.2.2/tests/.deps
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+rm -rf src/gc-8.2.2/cord/.dirstamp
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+rm -rf src/gc-8.2.2/m4/lt~obsolete.m4
49 49
 
50 50
 ## -- Muscle
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 rm -rf src/Muscle/muscle.make.std???.txt
Browse code

Upgraded to GC 7.6.12 + corresponding changes in package

UBod authored on 15/10/2021 10:54:55
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@@ -6,46 +6,46 @@ rm -rf src/*.a
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 rm -rf src/*.o
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 rm -rf src/*.rds
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-## gc-7.2
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-rm -rf src/gc-7.2/.deps
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-rm -rf src/gc-7.2/.libs
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-rm -rf src/gc-7.2/*.o
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-rm -rf src/gc-7.2/*.la
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-rm -rf src/gc-7.2/*.lo
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-rm -rf src/gc-7.2/Makefile
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-rm -rf src/gc-7.2/bdw-gc.pc
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-rm -rf src/gc-7.2/config.log
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-rm -rf src/gc-7.2/config.status
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-rm -rf src/gc-7.2/cord/.deps
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-rm -rf src/gc-7.2/cord/.libs
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-rm -rf src/gc-7.2/cord/*.o
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-rm -rf src/gc-7.2/cord/*.lo
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-rm -rf src/gc-7.2/cord/*.la
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-rm -rf src/gc-7.2/include/private/config.h
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-rm -rf src/gc-7.2/include/private/stamp-h1
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-rm -rf src/gc-7.2/libatomic_ops/Makefile
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-rm -rf src/gc-7.2/libatomic_ops/config.log
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-rm -rf src/gc-7.2/libatomic_ops/config.status
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-rm -rf src/gc-7.2/libatomic_ops/doc/Makefile
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-rm -rf src/gc-7.2/libatomic_ops/pkgconfig/atomic_ops-uninstalled.pc
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-rm -rf src/gc-7.2/libatomic_ops/pkgconfig/atomic_ops.pc
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-rm -rf src/gc-7.2/libatomic_ops/src/.deps
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-rm -rf src/gc-7.2/libatomic_ops/src/.libs
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-rm -rf src/gc-7.2/libatomic_ops/src/*.o
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-rm -rf src/gc-7.2/libatomic_ops/src/*.la
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-rm -rf src/gc-7.2/libatomic_ops/src/*.lo
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-rm -rf src/gc-7.2/libatomic_ops/src/.dirstamp
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-rm -rf src/gc-7.2/libatomic_ops/src/Makefile
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-rm -rf src/gc-7.2/libatomic_ops/src/atomic_ops/Makefile
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-rm -rf src/gc-7.2/libatomic_ops/src/atomic_ops/sysdeps/Makefile
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-rm -rf src/gc-7.2/libatomic_ops/src/config.h
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-rm -rf src/gc-7.2/libatomic_ops/src/stamp-h1
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-rm -rf src/gc-7.2/libatomic_ops/tests/.deps
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-rm -rf src/gc-7.2/libatomic_ops/tests/Makefile
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-rm -rf src/gc-7.2/libtool
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-rm -rf src/gc-7.2/tests/.deps
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-rm -rf src/gc-7.2/cord/.dirstamp
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-rm -rf src/gc-7.2/m4/lt~obsolete.m4
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+## gc-7.6.12
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+rm -rf src/gc-7.6.12/.deps
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+rm -rf src/gc-7.6.12/.libs
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+rm -rf src/gc-7.6.12/*.o
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+rm -rf src/gc-7.6.12/*.la
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+rm -rf src/gc-7.6.12/*.lo
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+rm -rf src/gc-7.6.12/Makefile
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+rm -rf src/gc-7.6.12/bdw-gc.pc
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+rm -rf src/gc-7.6.12/config.log
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+rm -rf src/gc-7.6.12/config.status
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+rm -rf src/gc-7.6.12/cord/.deps
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+rm -rf src/gc-7.6.12/cord/.libs
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+rm -rf src/gc-7.6.12/cord/*.o
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+rm -rf src/gc-7.6.12/cord/*.lo
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+rm -rf src/gc-7.6.12/cord/*.la
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+rm -rf src/gc-7.6.12/include/private/config.h
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+rm -rf src/gc-7.6.12/include/private/stamp-h1
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+rm -rf src/gc-7.6.12/libatomic_ops/Makefile
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+rm -rf src/gc-7.6.12/libatomic_ops/config.log
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+rm -rf src/gc-7.6.12/libatomic_ops/config.status
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+rm -rf src/gc-7.6.12/libatomic_ops/doc/Makefile
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+rm -rf src/gc-7.6.12/libatomic_ops/pkgconfig/atomic_ops-uninstalled.pc
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+rm -rf src/gc-7.6.12/libatomic_ops/pkgconfig/atomic_ops.pc
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+rm -rf src/gc-7.6.12/libatomic_ops/src/.deps
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+rm -rf src/gc-7.6.12/libatomic_ops/src/.libs
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+rm -rf src/gc-7.6.12/libatomic_ops/src/*.o
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+rm -rf src/gc-7.6.12/libatomic_ops/src/*.la
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+rm -rf src/gc-7.6.12/libatomic_ops/src/*.lo
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+rm -rf src/gc-7.6.12/libatomic_ops/src/.dirstamp
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+rm -rf src/gc-7.6.12/libatomic_ops/src/Makefile
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+rm -rf src/gc-7.6.12/libatomic_ops/src/atomic_ops/Makefile
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+rm -rf src/gc-7.6.12/libatomic_ops/src/atomic_ops/sysdeps/Makefile
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+rm -rf src/gc-7.6.12/libatomic_ops/src/config.h
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+rm -rf src/gc-7.6.12/libatomic_ops/src/stamp-h1
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+rm -rf src/gc-7.6.12/libatomic_ops/tests/.deps
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+rm -rf src/gc-7.6.12/libatomic_ops/tests/Makefile
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+rm -rf src/gc-7.6.12/libtool
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+rm -rf src/gc-7.6.12/tests/.deps
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+rm -rf src/gc-7.6.12/cord/.dirstamp
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+rm -rf src/gc-7.6.12/m4/lt~obsolete.m4
49 49
 
50 50
 ## -- Muscle
51 51
 rm -rf src/Muscle/muscle.make.std???.txt
Browse code

add package to the repository

msa


git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msa@102253 bc3139a8-67e5-0310-9ffc-ced21a209358

Sonali Arora authored on 10/04/2015 00:12:33
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new file mode 100755
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+#!/bin/bash
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+
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+## msa
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+rm -rf src/*.so
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+rm -rf src/*.a
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+rm -rf src/*.o
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+rm -rf src/*.rds
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+
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+## gc-7.2
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+rm -rf src/gc-7.2/.deps
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+rm -rf src/gc-7.2/.libs
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+rm -rf src/gc-7.2/*.o
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+rm -rf src/gc-7.2/*.la
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+rm -rf src/gc-7.2/*.lo
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+rm -rf src/gc-7.2/Makefile
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+rm -rf src/gc-7.2/bdw-gc.pc
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+rm -rf src/gc-7.2/config.log
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+rm -rf src/gc-7.2/config.status
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+rm -rf src/gc-7.2/cord/.deps
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+rm -rf src/gc-7.2/cord/.libs
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+rm -rf src/gc-7.2/cord/*.o
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+rm -rf src/gc-7.2/cord/*.lo
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+rm -rf src/gc-7.2/cord/*.la
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+rm -rf src/gc-7.2/include/private/config.h
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+rm -rf src/gc-7.2/include/private/stamp-h1
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+rm -rf src/gc-7.2/libatomic_ops/Makefile
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+rm -rf src/gc-7.2/libatomic_ops/config.log
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+rm -rf src/gc-7.2/libatomic_ops/config.status
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+rm -rf src/gc-7.2/libatomic_ops/doc/Makefile
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+rm -rf src/gc-7.2/libatomic_ops/pkgconfig/atomic_ops-uninstalled.pc
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+rm -rf src/gc-7.2/libatomic_ops/pkgconfig/atomic_ops.pc
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+rm -rf src/gc-7.2/libatomic_ops/src/.deps
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+rm -rf src/gc-7.2/libatomic_ops/src/.libs
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+rm -rf src/gc-7.2/libatomic_ops/src/*.o
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+rm -rf src/gc-7.2/libatomic_ops/src/*.la
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+rm -rf src/gc-7.2/libatomic_ops/src/*.lo
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+rm -rf src/gc-7.2/libatomic_ops/src/.dirstamp
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+rm -rf src/gc-7.2/libatomic_ops/src/Makefile
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+rm -rf src/gc-7.2/libatomic_ops/src/atomic_ops/Makefile
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+rm -rf src/gc-7.2/libatomic_ops/src/atomic_ops/sysdeps/Makefile
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+rm -rf src/gc-7.2/libatomic_ops/src/config.h
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+rm -rf src/gc-7.2/libatomic_ops/src/stamp-h1
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+rm -rf src/gc-7.2/libatomic_ops/tests/.deps
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+rm -rf src/gc-7.2/libatomic_ops/tests/Makefile
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+rm -rf src/gc-7.2/libtool
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+rm -rf src/gc-7.2/tests/.deps
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+rm -rf src/gc-7.2/cord/.dirstamp
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+rm -rf src/gc-7.2/m4/lt~obsolete.m4
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+
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+## -- Muscle
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+rm -rf src/Muscle/muscle.make.std???.txt
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+rm -rf src/Muscle/*.o
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+rm -rf src/Muscle/*.a
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+rm -rf src/Muscle/*.so
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+rm -rf src/Muscle/*.rds
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+
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+## -- ClustalW
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+rm -rf src/ClustalW/config.status
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+rm -rf src/ClustalW/autom4te.cache
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+rm -rf src/ClustalW/Makefile
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+rm -rf src/ClustalW/config.log
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+rm -rf src/ClustalW/src/clustalw2
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+rm -rf src/ClustalW/src/stamp-h1
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+rm -rf src/ClustalW/src/.deps
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+rm -rf src/ClustalW/src/config.h
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+rm -rf src/ClustalW/src/Makefile
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+rm -rf src/ClustalW/m4/Makefile
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+rm -rf src/ClustalW/src/*.o
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+rm -rf src/ClustalW/src/alignment/*.o
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+rm -rf src/ClustalW/src/fileInput/*.o
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+rm -rf src/ClustalW/src/general/*.o
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+rm -rf src/ClustalW/src/interface/*.o
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+rm -rf src/ClustalW/src/multipleAlign/*.o
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+rm -rf src/ClustalW/src/pairwise/*.o
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+rm -rf src/ClustalW/src/substitutionMatrix/*.o
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+rm -rf src/ClustalW/src/tree/*.o
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+rm -rf src/ClustalW/src/tree/UPGMA/*.o
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+rm -rf src/ClustalW/src/.deps
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+rm -rf src/ClustalW/src/*.a
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+rm -rf src/ClustalW/src/*.so
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+rm -rf src/ClustalW/src/*.rds
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+
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+## -- ClustalOmega
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+rm -rf src/ClustalOmega/Makefile
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+rm -rf src/ClustalOmega/clustalo.pc
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+rm -rf src/ClustalOmega/_configs.sed
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+rm -rf src/ClustalOmega/autom4te.cache
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+rm -rf src/ClustalOmega/config.log
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+rm -rf src/ClustalOmega/config.status
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+rm -rf src/ClustalOmega/libtool
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+rm -rf src/ClustalOmega/src/stamp-h1
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+rm -rf src/ClustalOmega/src/config.h
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+rm -rf src/ClustalOmega/src/.deps
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+rm -rf src/ClustalOmega/src/.libs
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+rm -rf src/ClustalOmega/src/*.la
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+rm -rf src/ClustalOmega/src/*.o
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+rm -rf src/ClustalOmega/src/*.lo
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+rm -rf src/ClustalOmega/src/Makefile
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+rm -rf src/ClustalOmega/src/clustalo
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+rm -rf src/ClustalOmega/src/kmpp/.deps
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+rm -rf src/ClustalOmega/src/kmpp/.libs
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+rm -rf src/ClustalOmega/src/kmpp/*.la
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+rm -rf src/ClustalOmega/src/kmpp/*.o
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+rm -rf src/ClustalOmega/src/kmpp/*.lo
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+rm -rf src/ClustalOmega/src/kmpp/Makefile
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+rm -rf src/ClustalOmega/src/clustal/.deps
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+rm -rf src/ClustalOmega/src/clustal/.libs
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+rm -rf src/ClustalOmega/src/clustal/*.o
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+rm -rf src/ClustalOmega/src/clustal/*.lo
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+rm -rf src/ClustalOmega/src/clustal/*.la
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+rm -rf src/ClustalOmega/src/clustal/Makefile
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+rm -rf src/ClustalOmega/src/hhalign/.deps
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+rm -rf src/ClustalOmega/src/hhalign/.libs
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+rm -rf src/ClustalOmega/src/hhalign/*.la
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+rm -rf src/ClustalOmega/src/hhalign/*.o
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+rm -rf src/ClustalOmega/src/hhalign/*.lo
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+rm -rf src/ClustalOmega/src/hhalign/Makefile
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+rm -rf src/ClustalOmega/src/squid/.deps
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+rm -rf src/ClustalOmega/src/squid/.libs
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+rm -rf src/ClustalOmega/src/squid/*.la
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+rm -rf src/ClustalOmega/src/squid/*.o
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+rm -rf src/ClustalOmega/src/squid/*.lo
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+rm -rf src/ClustalOmega/src/squid/Makefile
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+rm -rf src/ClustalOmega/src/argtable2/.deps
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+rm -rf src/ClustalOmega/src/argtable2/.libs
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+rm -rf src/ClustalOmega/src/argtable2/*.la
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+rm -rf src/ClustalOmega/src/argtable2/*.o
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+rm -rf src/ClustalOmega/src/argtable2/*.lo
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+rm -rf src/ClustalOmega/src/argtable2/Makefile
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+rm -rf src/ClustalOmega/src/exceptions4c/.deps
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+rm -rf src/ClustalOmega/src/exceptions4c/.libs
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+rm -rf src/ClustalOmega/src/exceptions4c/*.la
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+rm -rf src/ClustalOmega/src/exceptions4c/*.o
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+rm -rf src/ClustalOmega/src/exceptions4c/*.lo
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+rm -rf src/ClustalOmega/src/exceptions4c/Makefile
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+rm -rf src/ClustalOmega/src/*.a
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+rm -rf src/ClustalOmega/src/*.so
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+rm -rf src/ClustalOmega/src/*.rds