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commit 18dd66793738f00e890a0a19c4fc74f5b2b374e1 Author: Alexandre Mestiashvili <[email protected]> Date: Sat Sep 5 12:35:58 2015 +0200 d/changelog: new upstream version 1.4.6-p5 d/rules: build instructions for documentation d/subread.docs: install pdf d/control: add texlive Build-Dependecies d/patches/fix_syntax.patch: partially applied by upstream --- debian/changelog | 6 ++++++ debian/control | 4 +++- debian/patches/fix_syntax.patch | 15 --------------- debian/rules | 7 +++++++ debian/subread.docs | 1 + 5 files changed, 17 insertions(+), 16 deletions(-) diff --git a/debian/changelog b/debian/changelog index e18b801..0cb8af8 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,9 @@ +subread (1.4.6-p5+dfsg-1) UNRELEASED; urgency=medium + + * Imported Upstream version 1.4.6-p5+dfsg + + -- Alexandre Mestiashvili <[email protected]> Sat, 05 Sep 2015 12:35:30 +0200 + subread (1.4.6-p4+dfsg-1) unstable; urgency=medium * d/patches/arch_specific_flags.patch: set the optimization level diff --git a/debian/control b/debian/control index 5b3b497..ddbb62a 100644 --- a/debian/control +++ b/debian/control @@ -7,7 +7,9 @@ Testsuite: autopkgtest Priority: optional Build-Depends: debhelper (>= 9), zlib1g-dev, - help2man + help2man, + texlive-latex-extra, + texlive-bibtex-extra, Standards-Version: 3.9.6 Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/subread.git Vcs-Git: git://anonscm.debian.org/debian-med/subread.git diff --git a/debian/patches/fix_syntax.patch b/debian/patches/fix_syntax.patch index 6147896..15487c3 100644 --- a/debian/patches/fix_syntax.patch +++ b/debian/patches/fix_syntax.patch @@ -1,6 +1,5 @@ Description: Fix spelling errors Subject: spelling-error-in-binary subread-buildindex s/sucessfully/successfully/ - coverageCount s/coveage/coverage/ Origin: Debian Med Packaging Team <[email protected]> --- subread.orig/src/index-builder.c +++ subread/src/index-builder.c @@ -13,17 +12,3 @@ Origin: Debian Med Packaging Team <[email protected]> } exit(param); ---- subread.orig/src/coverage_calc.c -+++ subread/src/coverage_calc.c -@@ -28,9 +28,9 @@ - - void calcCount_usage() - { -- SUBREADprintf("\ncoveageCount v%s\n\n", SUBREAD_VERSION); -+ SUBREADprintf("\ncoverageCount v%s\n\n", SUBREAD_VERSION); - SUBREADprintf("Counting the coverage of mapped reads at each location on the entire reference genome.\n\n"); -- SUBREADprintf("./ncoveageCount -i <sam_bam_input> -o <output_prefix>\n\n"); -+ SUBREADprintf("./coverageCount -i <sam_bam_input> -o <output_prefix>\n\n"); - } - - void add_chro(char *sam_h) diff --git a/debian/rules b/debian/rules index cef5aab..dfbb6bd 100755 --- a/debian/rules +++ b/debian/rules @@ -9,6 +9,9 @@ pkg := $(shell dpkg-parsechangelog --show-field=Source) mandir := $(CURDIR)/debian/$(pkg)/usr/share/man/man1 bindir := $(CURDIR)/bin utildir := $(CURDIR)/bin/utilities +TEXDOC := SubreadUsersGuide.tex +BIBDOC := SubreadUsersGuide.aux +DOCDIR := doc DEB_HOST_ARCH := $(shell dpkg-architecture -qDEB_HOST_ARCH) EXTRA_CC_FLAGS = @@ -26,6 +29,10 @@ override_dh_clean: override_dh_auto_build: cd src; make -f Makefile.Linux + cd $(DOCDIR) && pdflatex -synctex=1 -interaction=nonstopmode $(TEXDOC) + cd $(DOCDIR) && bibtex $(BIBDOC) + cd $(DOCDIR) && pdflatex -synctex=1 -interaction=nonstopmode $(TEXDOC) + cd $(DOCDIR) && pdflatex -synctex=1 -interaction=nonstopmode $(TEXDOC) dh_auto_build override_dh_auto_test: diff --git a/debian/subread.docs b/debian/subread.docs index 71dfd5b..05bd242 100644 --- a/debian/subread.docs +++ b/debian/subread.docs @@ -1 +1,2 @@ README.txt +doc/SubreadUsersGuide.pdf -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/subread.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
