Loading debian/changelog +11 −4 Original line number Diff line number Diff line fasta3 (36.3.8h-1) UNRELEASED; urgency=medium fasta3 (36.3.8h-1) unstable; urgency=medium [ Andreas Tille ] * Team upload. * New upstream version * debhelper-compat 12 * Standards-Version: 4.4.0 TODO: Do we really need to use non-free smith waterman code? There is a free libssw. Please contact upstream! -- Andreas Tille <tille@debian.org> Mon, 19 Aug 2019 21:45:02 +0200 [ Steffen Moeller] * Standards-Version: 4.4.1 * Fixed patches - somehow one Makefile.common was removed but needed that led to a FTBFS. -- Steffen Moeller <moeller@debian.org> Mon, 06 Jan 2020 12:20:34 +0100 fasta3 (36.3.8g-1) unstable; urgency=low Loading debian/control +1 −1 Original line number Diff line number Diff line Loading @@ -6,7 +6,7 @@ XS-Autobuild: no Priority: optional Build-Depends: debhelper-compat (= 12), zlib1g-dev Standards-Version: 4.4.0 Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/fasta3 Vcs-Git: https://salsa.debian.org/med-team/fasta3.git Homepage: http://fasta.bioch.virginia.edu Loading debian/patches/Makefile.patch +0 −55 Original line number Diff line number Diff line Loading @@ -29,58 +29,3 @@ Description: Makefile +CFLAGS += -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit -DM10_CONS -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP -D_LARGEFILE64_SOURCE -DBIG_LIB64 # -I/usr/include/mysql -DMYSQL_DB # -DSUPERFAMNUM -DSFCHAR="'|'" --- a/make/Makefile36m.common +++ /dev/null @@ -1,51 +0,0 @@ -# -# $Name: $ - $Id: Makefile36m.common 1250 2014-01-24 21:33:39Z wrp $ -# -# commands common to all architectures -# if your architecture does not support "include", append at the end. -# - -COMP_LIBO=comp_mlib9.o # reads database into memory for multi-query without delay -COMP_THRO=comp_mthr9.o # threaded version - -WORK_THRO=work_thr2.o -GETSEQO = - -# standard nxgetaa, no memory mapping for 0 - 6 -#LGETLIB=getseq.o lgetlib.o -#NGETLIB=nmgetlib - -# memory mapping for 0FASTA, 5PIRVMS, 6GCGBIN -LGETLIB= $(GETSEQO) lgetlib.o lgetaa_m.o -NGETLIB=nmgetlib - -# use ncbl_lib.c for BLAST1.4 support instead of ncbl2_mlib.c -#NCBL_LIB=ncbl_lib.o - -# this option should support both formats (BLAST1.4 not currently supported): -#NCBL_LIB=ncbl_lib.o ncbl2_mlib.o - -# normally use ncbl2_mlib.c -#NCBL_LIB=ncbl2_mlib.o -#LIB_M= -lm - -# this option supports NCBI BLAST2 and mySQL -# it requires "-I/usr/include/mysql -DMYSQL_DB" in CFLAGS -# and "-L/usr/lib64/mysql -lmysqlclient -lz" in LIB_M -# some systems may also require a LD_LIBRARY_PATH change - -LIB_M= -lm -#LIB_M= -L/usr/lib64/mysql -lmysqlclient -lm # -lz -NCBL_LIB=ncbl2_mlib.o -#NCBL_LIB=ncbl2_mlib.o mysql_lib.o - -# threaded as _t, serial -# include ../make/Makefile.pcom - -# threaded without _t -include ../make/Makefile.pcom_t - -# serial only -# include ../make/Makefile.pcom_s - -include ../make/Makefile.fcom Loading
debian/changelog +11 −4 Original line number Diff line number Diff line fasta3 (36.3.8h-1) UNRELEASED; urgency=medium fasta3 (36.3.8h-1) unstable; urgency=medium [ Andreas Tille ] * Team upload. * New upstream version * debhelper-compat 12 * Standards-Version: 4.4.0 TODO: Do we really need to use non-free smith waterman code? There is a free libssw. Please contact upstream! -- Andreas Tille <tille@debian.org> Mon, 19 Aug 2019 21:45:02 +0200 [ Steffen Moeller] * Standards-Version: 4.4.1 * Fixed patches - somehow one Makefile.common was removed but needed that led to a FTBFS. -- Steffen Moeller <moeller@debian.org> Mon, 06 Jan 2020 12:20:34 +0100 fasta3 (36.3.8g-1) unstable; urgency=low Loading
debian/control +1 −1 Original line number Diff line number Diff line Loading @@ -6,7 +6,7 @@ XS-Autobuild: no Priority: optional Build-Depends: debhelper-compat (= 12), zlib1g-dev Standards-Version: 4.4.0 Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/fasta3 Vcs-Git: https://salsa.debian.org/med-team/fasta3.git Homepage: http://fasta.bioch.virginia.edu Loading
debian/patches/Makefile.patch +0 −55 Original line number Diff line number Diff line Loading @@ -29,58 +29,3 @@ Description: Makefile +CFLAGS += -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit -DM10_CONS -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP -D_LARGEFILE64_SOURCE -DBIG_LIB64 # -I/usr/include/mysql -DMYSQL_DB # -DSUPERFAMNUM -DSFCHAR="'|'" --- a/make/Makefile36m.common +++ /dev/null @@ -1,51 +0,0 @@ -# -# $Name: $ - $Id: Makefile36m.common 1250 2014-01-24 21:33:39Z wrp $ -# -# commands common to all architectures -# if your architecture does not support "include", append at the end. -# - -COMP_LIBO=comp_mlib9.o # reads database into memory for multi-query without delay -COMP_THRO=comp_mthr9.o # threaded version - -WORK_THRO=work_thr2.o -GETSEQO = - -# standard nxgetaa, no memory mapping for 0 - 6 -#LGETLIB=getseq.o lgetlib.o -#NGETLIB=nmgetlib - -# memory mapping for 0FASTA, 5PIRVMS, 6GCGBIN -LGETLIB= $(GETSEQO) lgetlib.o lgetaa_m.o -NGETLIB=nmgetlib - -# use ncbl_lib.c for BLAST1.4 support instead of ncbl2_mlib.c -#NCBL_LIB=ncbl_lib.o - -# this option should support both formats (BLAST1.4 not currently supported): -#NCBL_LIB=ncbl_lib.o ncbl2_mlib.o - -# normally use ncbl2_mlib.c -#NCBL_LIB=ncbl2_mlib.o -#LIB_M= -lm - -# this option supports NCBI BLAST2 and mySQL -# it requires "-I/usr/include/mysql -DMYSQL_DB" in CFLAGS -# and "-L/usr/lib64/mysql -lmysqlclient -lz" in LIB_M -# some systems may also require a LD_LIBRARY_PATH change - -LIB_M= -lm -#LIB_M= -L/usr/lib64/mysql -lmysqlclient -lm # -lz -NCBL_LIB=ncbl2_mlib.o -#NCBL_LIB=ncbl2_mlib.o mysql_lib.o - -# threaded as _t, serial -# include ../make/Makefile.pcom - -# threaded without _t -include ../make/Makefile.pcom_t - -# serial only -# include ../make/Makefile.pcom_s - -include ../make/Makefile.fcom
