[galaxy-commits] [galaxyproject/galaxy] 11b4f3: Fix import order and Python3 compatibility for too...

GitHub noreply at github.com
Fri Sep 30 11:08:28 EDT 2016


  Branch: refs/heads/dev
  Home:   https://github.com/galaxyproject/galaxy
  Commit: 11b4f3a60c3f24ddbfdf1421391c9b443060a3cf
      https://github.com/galaxyproject/galaxy/commit/11b4f3a60c3f24ddbfdf1421391c9b443060a3cf
  Author: Nicola Soranzo <nicola.soranzo at tgac.ac.uk>
  Date:   2016-09-29 (Thu, 29 Sep 2016)

  Changed paths:
    M .ci/flake8_lint_include_list.txt
    M .ci/py3_sources.txt
    M tools/data_source/data_source.py
    M tools/data_source/hbvar_filter.py
    M tools/data_source/microbial_import_code.py
    M tools/evolution/add_scores.py
    M tools/evolution/codingSnps_filter.py
    M tools/extract/extract_genomic_dna.py
    M tools/filters/axt_to_concat_fasta.py
    M tools/filters/axt_to_fasta.py
    M tools/filters/axt_to_lav.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/extract_GFF_Features.py
    M tools/filters/gff/gff_filter_by_attribute.py
    M tools/filters/gff/gff_filter_by_feature_count.py
    M tools/filters/gff/gtf_filter_by_attribute_values_list.py
    M tools/filters/gff_to_bed_converter.py
    M tools/filters/grep.py
    M tools/filters/gtf_to_bedgraph_converter.py
    M tools/filters/join.py
    M tools/filters/lav_to_bed.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/secure_hash_message_digest.py
    M tools/filters/sff_extract.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/filters/wiggle_to_simple.py
    M tools/genomespace/genomespace_exporter.py
    M tools/genomespace/genomespace_file_browser.py
    M tools/genomespace/genomespace_importer.py
    M tools/maf/interval2maf.py
    M tools/maf/interval_maf_to_merged_fasta.py
    M tools/maf/maf_by_block_number.py
    M tools/maf/maf_filter.py
    M tools/maf/maf_limit_size.py
    M tools/maf/maf_limit_to_species.py
    M tools/maf/maf_reverse_complement.py
    M tools/maf/maf_split_by_species.py
    M tools/maf/maf_stats.py
    M tools/maf/maf_thread_for_species.py
    M tools/maf/maf_to_bed.py
    M tools/maf/maf_to_bed_code.py
    M tools/maf/maf_to_fasta_concat.py
    M tools/maf/maf_to_fasta_multiple_sets.py
    M tools/maf/vcf_to_maf_customtrack.py
    M tools/metag_tools/shrimp_color_wrapper.py
    M tools/metag_tools/shrimp_wrapper.py
    M tools/next_gen_conversion/solid2fastq.py
    M tools/next_gen_conversion/solid_to_fastq.py
    M tools/ngs_simulation/ngs_simulation.py
    M tools/phenotype_association/pagetag.py
    M tools/phenotype_association/senatag.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_mapping/bfast_wrapper.py
    M tools/stats/filtering.py
    M tools/stats/grouping.py
    M tools/stats/gsummary.py
    M tools/visualization/LAJ_code.py

  Log Message:
  -----------
  Fix import order and Python3 compatibility for tools/

xref #1715


  Commit: a1158a79059a47cd928eee2acdbb81df9fbdabcb
      https://github.com/galaxyproject/galaxy/commit/a1158a79059a47cd928eee2acdbb81df9fbdabcb
  Author: Dannon Baker <dannon.baker at gmail.com>
  Date:   2016-09-30 (Fri, 30 Sep 2016)

  Changed paths:
    M .ci/flake8_lint_include_list.txt
    M .ci/py3_sources.txt
    M tools/data_source/data_source.py
    M tools/data_source/hbvar_filter.py
    M tools/data_source/microbial_import_code.py
    M tools/evolution/add_scores.py
    M tools/evolution/codingSnps_filter.py
    M tools/extract/extract_genomic_dna.py
    M tools/filters/axt_to_concat_fasta.py
    M tools/filters/axt_to_fasta.py
    M tools/filters/axt_to_lav.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/extract_GFF_Features.py
    M tools/filters/gff/gff_filter_by_attribute.py
    M tools/filters/gff/gff_filter_by_feature_count.py
    M tools/filters/gff/gtf_filter_by_attribute_values_list.py
    M tools/filters/gff_to_bed_converter.py
    M tools/filters/grep.py
    M tools/filters/gtf_to_bedgraph_converter.py
    M tools/filters/join.py
    M tools/filters/lav_to_bed.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/secure_hash_message_digest.py
    M tools/filters/sff_extract.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/filters/wiggle_to_simple.py
    M tools/genomespace/genomespace_exporter.py
    M tools/genomespace/genomespace_file_browser.py
    M tools/genomespace/genomespace_importer.py
    M tools/maf/interval2maf.py
    M tools/maf/interval_maf_to_merged_fasta.py
    M tools/maf/maf_by_block_number.py
    M tools/maf/maf_filter.py
    M tools/maf/maf_limit_size.py
    M tools/maf/maf_limit_to_species.py
    M tools/maf/maf_reverse_complement.py
    M tools/maf/maf_split_by_species.py
    M tools/maf/maf_stats.py
    M tools/maf/maf_thread_for_species.py
    M tools/maf/maf_to_bed.py
    M tools/maf/maf_to_bed_code.py
    M tools/maf/maf_to_fasta_concat.py
    M tools/maf/maf_to_fasta_multiple_sets.py
    M tools/maf/vcf_to_maf_customtrack.py
    M tools/metag_tools/shrimp_color_wrapper.py
    M tools/metag_tools/shrimp_wrapper.py
    M tools/next_gen_conversion/solid2fastq.py
    M tools/next_gen_conversion/solid_to_fastq.py
    M tools/ngs_simulation/ngs_simulation.py
    M tools/phenotype_association/pagetag.py
    M tools/phenotype_association/senatag.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_mapping/bfast_wrapper.py
    M tools/stats/filtering.py
    M tools/stats/grouping.py
    M tools/stats/gsummary.py
    M tools/visualization/LAJ_code.py

  Log Message:
  -----------
  Merge pull request #2983 from nsoranzo/python3

Fix import order and Python3 compatibility for tools/


Compare: https://github.com/galaxyproject/galaxy/compare/7dadb932d827...a1158a79059a


More information about the galaxy-commits mailing list