| Previous changeset 0:f875256c722e (2017-02-18) Next changeset 2:a9cb6fb9ea94 (2017-08-24) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/dunovo commit b'd25c300643f4f204b4a9445b8eac071b2d127520\n'-dirty |
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modified:
align_families.xml correct_barcodes.xml dunovo.xml make_families.xml tool_dependencies.xml |
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| diff -r f875256c722e -r ea832c221ec9 align_families.xml --- a/align_families.xml Sat Feb 18 05:58:44 2017 -0500 +++ b/align_families.xml Fri Feb 24 03:18:01 2017 -0500 |
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| @@ -3,7 +3,7 @@ <description>of duplex sequencing reads</description> <requirements> <requirement type="package" version="7.221">mafft</requirement> - <requirement type="package" version="0.7">dunovo</requirement> + <requirement type="package" version="0.7.1">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <command detect_errors="exit_code">align_families.py -p \${GALAXY_SLOTS:-1} '$input' > '$output' |
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| diff -r f875256c722e -r ea832c221ec9 correct_barcodes.xml --- a/correct_barcodes.xml Sat Feb 18 05:58:44 2017 -0500 +++ b/correct_barcodes.xml Fri Feb 24 03:18:01 2017 -0500 |
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| @@ -2,10 +2,10 @@ <tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="0.7"> <description>of duplex sequencing reads</description> <requirements> - <requirement type="package" version="2.1.0">bowtie2</requirement> + <requirement type="package" version="2.2.5">bowtie2</requirement> <requirement type="package" version="0.1.18">samtools</requirement> <requirement type="package" version="1.9">networkx</requirement> - <requirement type="package" version="0.7">dunovo</requirement> + <requirement type="package" version="0.7.1">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <command detect_errors="exit_code">correct-barcodes.sh -d $dist -m $mapq -p $pos '$input' > '$output' |
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| diff -r f875256c722e -r ea832c221ec9 dunovo.xml --- a/dunovo.xml Sat Feb 18 05:58:44 2017 -0500 +++ b/dunovo.xml Fri Feb 24 03:18:01 2017 -0500 |
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| @@ -2,7 +2,7 @@ <tool id="dunovo" name="Du Novo: Make consensus reads" version="0.7"> <description>from duplex sequencing alignments</description> <requirements> - <requirement type="package" version="0.7">dunovo</requirement> + <requirement type="package" version="0.7.1">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <command detect_errors="exit_code">dunovo.sh -r $min_reads -q $qual_thres -F $qual_format '$input' '$dcs1' '$dcs2' |
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| diff -r f875256c722e -r ea832c221ec9 make_families.xml --- a/make_families.xml Sat Feb 18 05:58:44 2017 -0500 +++ b/make_families.xml Fri Feb 24 03:18:01 2017 -0500 |
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| @@ -2,7 +2,7 @@ <tool id="make_families" name="Du Novo: Make families" version="0.7"> <description>of duplex sequencing reads</description> <requirements> - <requirement type="package" version="0.7">dunovo</requirement> + <requirement type="package" version="0.7.1">dunovo</requirement> </requirements> <!-- TODO: Add dependency on coreutils to get paste? --> <command detect_errors="exit_code">make-families.sh -t $taglen -i $invariant '$fastq1' '$fastq2' > '$output' |
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| diff -r f875256c722e -r ea832c221ec9 tool_dependencies.xml --- a/tool_dependencies.xml Sat Feb 18 05:58:44 2017 -0500 +++ b/tool_dependencies.xml Fri Feb 24 03:18:01 2017 -0500 |
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| @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tool_dependency> - <package name="bowtie2" version="2.1.0"> - <repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> + <package name="bowtie2" version="2.2.5"> + <repository changeset_revision="30bd7eaeddbf" name="package_bowtie_2_2_5" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="samtools" version="0.1.18"> <repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> @@ -12,10 +12,10 @@ <package name="networkx" version="1.9"> <repository changeset_revision="83df321ad85e" name="package_networkx_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> - <package name="dunovo" version="0.7"> + <package name="dunovo" version="0.7.1"> <install version="1.0"> <actions> - <action sha256sum="9d5092490772c43c73f7c85ea883d6a18f5df030fb4eac7310ac40694495b7c8" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v0.7.tar.gz</action> + <action sha256sum="c10c54bd2b33929bbd7c78b9d9d98818793f8da3d59bfe4ed7499587bfdef24d" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v0.7.1.tar.gz</action> <action type="shell_command">make</action> <action type="move_directory_files"> <source_directory>.</source_directory> |