This is an automated email from the git hooks/post-receive script. sascha-guest pushed a commit to branch master in repository spades.
commit 3f32c1ce80087f81c7d9f6bd8ac2cbf255a54a48 Author: Sascha Steinbiss <[email protected]> Date: Thu Feb 11 15:11:52 2016 +0000 remove unnecessary patch --- debian/patches/0114_adjust_seqio_imports.patch | 59 -------------------------- debian/patches/series | 1 - 2 files changed, 60 deletions(-) diff --git a/debian/patches/0114_adjust_seqio_imports.patch b/debian/patches/0114_adjust_seqio_imports.patch deleted file mode 100644 index f48c096..0000000 --- a/debian/patches/0114_adjust_seqio_imports.patch +++ /dev/null @@ -1,59 +0,0 @@ -Description: use correct SeqIO imports - Upstream's Biopython imports are missing the 'from Bio' part. Adding this - to allow usage of Debian's packaged Biopython. -Author: Sascha Steinbiss <[email protected]> ---- a/src/spades_pipeline/truspades/break_by_coverage.py -+++ b/src/spades_pipeline/truspades/break_by_coverage.py -@@ -7,7 +7,7 @@ - ############################################################################ - - --import SeqIO -+from Bio import SeqIO - from SeqIO import SeqRecord - - import sys ---- a/src/spades_pipeline/truspades/moleculo_filter_contigs.py -+++ b/src/spades_pipeline/truspades/moleculo_filter_contigs.py -@@ -9,7 +9,7 @@ - - import sam_parser - --import SeqIO -+from Bio import SeqIO - - import sys - ---- a/src/spades_pipeline/truspades/moleculo_postprocessing.py -+++ b/src/spades_pipeline/truspades/moleculo_postprocessing.py -@@ -6,7 +6,7 @@ - - import moleculo_filter_contigs - import break_by_coverage --import SeqIO -+from Bio import SeqIO - import sys - import generate_quality - import sam_parser ---- a/src/spades_pipeline/truspades/reference_construction.py -+++ b/src/spades_pipeline/truspades/reference_construction.py -@@ -16,7 +16,7 @@ - import itertools - import traceback - --import SeqIO -+from Bio import SeqIO - import alignment - import parallel_launcher - import sam_parser ---- a/truspades.py -+++ b/truspades.py -@@ -24,7 +24,7 @@ - sys.path.append(os.path.join(python_modules_home, "spades_pipeline", "truspades")) - sys.path.append(os.path.join(python_modules_home, "spades_pipeline")) - --import SeqIO -+from Bio import SeqIO - import parallel_launcher - import reference_construction - import launch_options diff --git a/debian/patches/series b/debian/patches/series index be65510..3d8c8f0 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -14,4 +14,3 @@ 0111_use_full_config_dirs.patch 0112_spelling.patch 0113_adjust_paths.patch -0114_adjust_seqio_imports.patch -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/spades.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
