Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 2ddf6eed639957369e3891d8766fa9f5c3d48c32 https://github.com/galaxyproject/galaxy/commit/2ddf6eed639957369e3891d8766fa... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-02-10 (Wed, 10 Feb 2016) Changed paths: M config/tool_conf.xml.sample R tools/validation/fix_errors.py R tools/validation/fix_errors.xml R tools/validation/fix_errors_code.py R tools/validation/validate.py Log Message: ----------- Remove broken and hidden fix_errors tool. Commit: 8703f3bd9ef595fb3b77a7021c85174f8502efa5 https://github.com/galaxyproject/galaxy/commit/8703f3bd9ef595fb3b77a7021c851... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-02-10 (Wed, 10 Feb 2016) Changed paths: R tools/plotting/plot_filter.py R tools/plotting/plotter.py Log Message: ----------- Remove unused files. Commit: 39da6c327857a028d3540ec7e7c3b9aa101ff132 https://github.com/galaxyproject/galaxy/commit/39da6c327857a028d3540ec7e7c3b... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-02-10 (Wed, 10 Feb 2016) Changed paths: M .ci/flake8_blacklist.txt M tools/data_source/fetch.py M tools/data_source/genbank.py M tools/data_source/hbvar_filter.py M tools/data_source/import.py M tools/data_source/microbial_import.py M tools/data_source/microbial_import_code.py M tools/filters/axt_to_lav_code.py M tools/filters/bed_to_gff_converter.py M tools/filters/convert_characters.py M tools/filters/gff/gtf_filter_by_attribute_values_list.py M tools/filters/grep.py M tools/filters/gtf_to_bedgraph_converter.py M tools/filters/join.py M tools/filters/joinWrapper.py M tools/filters/lav_to_bed_code.py M tools/filters/mergeCols.py M tools/filters/random_lines_two_pass.py M tools/filters/randomlines.py M tools/filters/sff_extract.py M tools/filters/sorter.py M tools/filters/trimmer.py M tools/filters/ucsc_gene_bed_to_exon_bed.py M tools/filters/ucsc_gene_bed_to_intron_bed.py M tools/filters/ucsc_gene_table_to_intervals.py M tools/filters/uniq.py M tools/genomespace/genomespace_file_browser.py M tools/genomespace/genomespace_importer.py M tools/meme/fimo_wrapper.py M tools/metag_tools/blat_wrapper.py M tools/metag_tools/shrimp_color_wrapper.py M tools/metag_tools/shrimp_wrapper.py M tools/phenotype_association/pagetag.py M tools/phenotype_association/senatag.py M tools/plotting/bar_chart.py M tools/solid_tools/maq_cs_wrapper.py M tools/solid_tools/solid_qual_stats.py M tools/sr_assembly/velvetg_wrapper.py M tools/sr_assembly/velveth_wrapper.py M tools/sr_mapping/bfast_wrapper.py M tools/sr_mapping/srma_wrapper.py M tools/sr_mapping/srma_wrapper.xml M tools/visualization/LAJ.py M tools/visualization/LAJ_code.py Log Message: ----------- Fix the remaining 2180 flake8 errors in tools/ . Commit: f8a6ee3354072d6edc8f7bf002d81e96285f17f0 https://github.com/galaxyproject/galaxy/commit/f8a6ee3354072d6edc8f7bf002d81... Author: Aysam Guerler <aysam.guerler@gmail.com> Date: 2016-02-10 (Wed, 10 Feb 2016) Changed paths: M .ci/flake8_blacklist.txt M config/tool_conf.xml.sample M tools/data_source/fetch.py M tools/data_source/genbank.py M tools/data_source/hbvar_filter.py M tools/data_source/import.py M tools/data_source/microbial_import.py M tools/data_source/microbial_import_code.py M tools/filters/axt_to_lav_code.py M tools/filters/bed_to_gff_converter.py M tools/filters/convert_characters.py M tools/filters/gff/gtf_filter_by_attribute_values_list.py M tools/filters/grep.py M tools/filters/gtf_to_bedgraph_converter.py M tools/filters/join.py M tools/filters/joinWrapper.py M tools/filters/lav_to_bed_code.py M tools/filters/mergeCols.py M tools/filters/random_lines_two_pass.py M tools/filters/randomlines.py M tools/filters/sff_extract.py M tools/filters/sorter.py M tools/filters/trimmer.py M tools/filters/ucsc_gene_bed_to_exon_bed.py M tools/filters/ucsc_gene_bed_to_intron_bed.py M tools/filters/ucsc_gene_table_to_intervals.py M tools/filters/uniq.py M tools/genomespace/genomespace_file_browser.py M tools/genomespace/genomespace_importer.py M tools/meme/fimo_wrapper.py M tools/metag_tools/blat_wrapper.py M tools/metag_tools/shrimp_color_wrapper.py M tools/metag_tools/shrimp_wrapper.py M tools/phenotype_association/pagetag.py M tools/phenotype_association/senatag.py M tools/plotting/bar_chart.py R tools/plotting/plot_filter.py R tools/plotting/plotter.py M tools/solid_tools/maq_cs_wrapper.py M tools/solid_tools/solid_qual_stats.py M tools/sr_assembly/velvetg_wrapper.py M tools/sr_assembly/velveth_wrapper.py M tools/sr_mapping/bfast_wrapper.py M tools/sr_mapping/srma_wrapper.py M tools/sr_mapping/srma_wrapper.xml R tools/validation/fix_errors.py R tools/validation/fix_errors.xml R tools/validation/fix_errors_code.py R tools/validation/validate.py M tools/visualization/LAJ.py M tools/visualization/LAJ_code.py Log Message: ----------- Merge pull request #1713 from nsoranzo/flake8_fixes Fix the remaining 2180 flake8 errors in tools/ . Compare: https://github.com/galaxyproject/galaxy/compare/1e46198becdb...f8a6ee335407