Sascha Steinbiss pushed to branch master at Debian Med / ariba
Commits: 4b898686 by Sascha Steinbiss at 2019-09-26T08:24:34Z New upstream version 2.14.4+ds - - - - - e43d01e5 by Sascha Steinbiss at 2019-09-26T08:24:39Z Merge tag 'upstream/2.14.4+ds' Upstream version 2.14.4+ds - - - - - 42210be4 by Sascha Steinbiss at 2019-09-26T08:40:13Z new upstream release - - - - - 5 changed files: - CHANGELOG.md - ariba/ref_genes_getter.py - debian/changelog - debian/patches/add-testdata.patch - setup.py Changes: ===================================== CHANGELOG.md ===================================== @@ -1,5 +1,12 @@ # Change Log +[v2.14.4](https://github.com/sanger-pathogens/ariba/tree/v2.14.4) (2019-09-24) +[Full Changelog](https://github.com/sanger-pathogens/ariba/compare/v2.14.3...v2.14.4) + +**Fixed bugs:** + +- ARGannot download fails [\#281](https://github.com/sanger-pathogens/ariba/issues/281) + [v2.14.3](https://github.com/sanger-pathogens/ariba/tree/v2.14.3) (2019-08-23) [Full Changelog](https://github.com/sanger-pathogens/ariba/compare/v2.14.2...v2.14.3) ===================================== ariba/ref_genes_getter.py ===================================== @@ -277,13 +277,12 @@ class RefGenesGetter: except: raise Error('Error mkdir/chdir ' + tmpdir) - zipfile = 'arg-annot-database_doc.zip' - common.download_file('http://www.mediterranee-infection.com/arkotheque/client/ihumed/_depot_arko/articles/304/arg-annot-database_doc.zip', zipfile, max_attempts=self.max_download_attempts, sleep_time=self.sleep_time, verbose=True) - common.syscall('unzip ' + zipfile) + downloadfile = 'arg-annot-database_doc' + common.download_file('https://www.mediterranee-infection.com/wp-content/uploads/2019/09/ARG-ANNOT_NT_V6_July2019.txt', downloadfile, max_attempts=self.max_download_attempts, sleep_time=self.sleep_time, verbose=True) os.chdir(current_dir) print('Extracted files.') - genes_file = os.path.join(tmpdir, 'Database Nt Sequences File.txt') + genes_file = os.path.join(tmpdir, downloadfile) final_fasta = outprefix + '.fa' final_tsv = outprefix + '.tsv' ===================================== debian/changelog ===================================== @@ -1,3 +1,9 @@ +ariba (2.14.4+ds-1) unstable; urgency=medium + + * New upstream release. + + -- Sascha Steinbiss <[email protected]> Thu, 26 Sep 2019 10:32:46 +0200 + ariba (2.14.3+ds-1) unstable; urgency=medium * New upstream release. ===================================== debian/patches/add-testdata.patch ===================================== @@ -4,7 +4,7 @@ Last-Update: 2019-09-09 --- a/setup.py +++ b/setup.py @@ -57,7 +57,43 @@ - version='2.14.3', + version='2.14.4', description='ARIBA: Antibiotic Resistance Identification By Assembly', packages = find_packages(), - package_data={'ariba': ['test_run_data/*', 'tb_data/*']}, ===================================== setup.py ===================================== @@ -55,7 +55,7 @@ vcfcall_mod = Extension( setup( ext_modules=[minimap_mod, fermilite_mod, vcfcall_mod], name='ariba', - version='2.14.3', + version='2.14.4', description='ARIBA: Antibiotic Resistance Identification By Assembly', packages = find_packages(), package_data={'ariba': ['test_run_data/*', 'tb_data/*']}, View it on GitLab: https://salsa.debian.org/med-team/ariba/compare/815a7f5e09a8779b055cddadfaf221c693b5239f...42210be4fb16de13793944d36a77249f36db8c32 -- View it on GitLab: https://salsa.debian.org/med-team/ariba/compare/815a7f5e09a8779b055cddadfaf221c693b5239f...42210be4fb16de13793944d36a77249f36db8c32 You're receiving this email because of your account on salsa.debian.org.
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