Andreas Tille pushed to branch master at Debian Med / transdecoder
Commits: 483b43b4 by Andreas Tille at 2020-01-10T12:03:01+01:00 Use 2to3 to port from Python2 to Python3 - - - - - 86f127aa by Andreas Tille at 2020-01-10T12:03:28+01:00 Depends: python3 - - - - - da52634e by Andreas Tille at 2020-01-10T12:04:37+01:00 routine-update: debhelper-compat 12 - - - - - ee5837e9 by Andreas Tille at 2020-01-10T12:04:44+01:00 routine-update: Standards-Version: 4.4.1 - - - - - 585dd9de by Andreas Tille at 2020-01-10T12:04:54+01:00 Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. - - - - - d1ab1efb by Andreas Tille at 2020-01-10T12:21:17+01:00 routine-update: Ready to upload to unstable - - - - - 6 changed files: - debian/changelog - − debian/compat - debian/control - + debian/patches/2to3.patch - debian/patches/series - debian/upstream/metadata Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,14 @@ +transdecoder (5.0.1-3) unstable; urgency=medium + + * Use 2to3 to port from Python2 to Python3 + Closes: #945719 + * debhelper-compat 12 + * Standards-Version: 4.4.1 + * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, + Repository-Browse. + + -- Andreas Tille <[email protected]> Fri, 10 Jan 2020 12:04:54 +0100 + transdecoder (5.0.1-2) unstable; urgency=medium * Point Vcs fields to salsa.debian.org ===================================== debian/compat deleted ===================================== @@ -1 +0,0 @@ -11 ===================================== debian/control ===================================== @@ -4,9 +4,9 @@ Uploaders: Michael R. Crusoe <[email protected]>, Andreas Tille <[email protected]> Section: science Priority: optional -Build-Depends: debhelper (>= 11~), +Build-Depends: debhelper-compat (= 12), liburi-perl -Standards-Version: 4.2.1 +Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/transdecoder Vcs-Git: https://salsa.debian.org/med-team/transdecoder.git Homepage: https://transdecoder.github.io/ @@ -17,7 +17,7 @@ Depends: ${misc:Depends}, ${perl:Depends}, liburi-perl, r-base-core, - python + python3 Description: find coding regions within RNA transcript sequences TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, ===================================== debian/patches/2to3.patch ===================================== @@ -0,0 +1,41 @@ +Description: Use 2to3 to port from Python2 to Python3 +Bug-Debian: https://bugs.debian.org/945719 +Author: Andreas Tille <[email protected]> +Last-Update: Fri, 10 Jan 2020 12:00:47 +0100 + +--- a/util/misc/get_FP_FN_scores.py ++++ b/util/misc/get_FP_FN_scores.py +@@ -1,4 +1,4 @@ +-#!/usr/bin/env python ++#!/usr/bin/python3 + + import os, sys, re + +--- a/util/misc/plot_indiv_seq_likelihood_profile.py ++++ b/util/misc/plot_indiv_seq_likelihood_profile.py +@@ -1,4 +1,4 @@ +-#!/usr/bin/env python ++#!/usr/bin/python3 + + import os,sys + import re +@@ -39,9 +39,9 @@ def main(): + score_vec.sort() + + if args.cumsum: +- plt.plot(range(1,len(score_vec)+1), np.cumsum(score_vec), marker ='o') ++ plt.plot(list(range(1,len(score_vec)+1)), np.cumsum(score_vec), marker ='o') + else: +- plt.plot(range(1,len(score_vec)+1), score_vec, marker ='+') ++ plt.plot(list(range(1,len(score_vec)+1)), score_vec, marker ='+') + + + plt.show() +--- a/util/misc/select_TD_orfs.py ++++ b/util/misc/select_TD_orfs.py +@@ -1,4 +1,4 @@ +-#!/usr/bin/env python ++#!/usr/bin/python3 + + import sys, os, re + import collections ===================================== debian/patches/series ===================================== @@ -1,2 +1,3 @@ fix-whatis reproducible-sample_data.patch +2to3.patch ===================================== debian/upstream/metadata ===================================== @@ -1,9 +1,13 @@ Registry: - - Name: OMICtools - Entry: OMICS_10852 - - Name: SciCrunch - Entry: NA - - Name: bio.tools - Entry: NA - - Name: conda:bioconda - Entry: transdecoder +- Name: OMICtools + Entry: OMICS_10852 +- Name: SciCrunch + Entry: NA +- Name: bio.tools + Entry: NA +- Name: conda:bioconda + Entry: transdecoder +Bug-Database: https://github.com/TransDecoder/Transdecoder/issues +Bug-Submit: https://github.com/TransDecoder/Transdecoder/issues/new +Repository: https://github.com/TransDecoder/Transdecoder.git +Repository-Browse: https://github.com/TransDecoder/Transdecoder View it on GitLab: https://salsa.debian.org/med-team/transdecoder/compare/d20e0b3109d70efe743cbda7aa26cf0c8396ea37...d1ab1efbc3d407ec6797455b64962678a00f68e5 -- View it on GitLab: https://salsa.debian.org/med-team/transdecoder/compare/d20e0b3109d70efe743cbda7aa26cf0c8396ea37...d1ab1efbc3d407ec6797455b64962678a00f68e5 You're receiving this email because of your account on salsa.debian.org.
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