| Previous changeset 5:000969829a5d (2017-10-27) Next changeset 7:e7b88ffb8294 (2017-11-10) |
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Commit message:
Bugfix in kalign for very diverse read lengths. |
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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 000969829a5d -r 23f5d9316694 align_families.xml --- a/align_families.xml Fri Oct 27 12:50:39 2017 -0400 +++ b/align_families.xml Thu Nov 02 16:24:48 2017 -0400 |
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| @@ -1,9 +1,9 @@ <?xml version="1.0"?> -<tool id="align_families" name="Du Novo: Align families" version="2.0.6"> +<tool id="align_families" name="Du Novo: Align families" version="2.0.8"> <description>of duplex sequencing reads</description> <requirements> <requirement type="package" version="7.221">mafft</requirement> - <requirement type="package" version="2.0.6">dunovo</requirement> + <requirement type="package" version="2.0.8">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <version_command>align_families.py --version</version_command> |
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| diff -r 000969829a5d -r 23f5d9316694 correct_barcodes.xml --- a/correct_barcodes.xml Fri Oct 27 12:50:39 2017 -0400 +++ b/correct_barcodes.xml Thu Nov 02 16:24:48 2017 -0400 |
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| @@ -1,11 +1,11 @@ <?xml version="1.0"?> -<tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="2.0.6.1"> +<tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="2.0.8"> <description>of duplex sequencing reads</description> <requirements> <requirement type="package" version="2.2.5">bowtie2</requirement> <requirement type="package" version="0.1.18">samtools</requirement> - <requirement type="package" version="1.11">networkx</requirement> - <requirement type="package" version="2.0.6">dunovo</requirement> + <requirement type="package" version="1.10">networkx</requirement> + <requirement type="package" version="2.0.8">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <version_command>correct.py --version</version_command> |
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| diff -r 000969829a5d -r 23f5d9316694 dunovo.xml --- a/dunovo.xml Fri Oct 27 12:50:39 2017 -0400 +++ b/dunovo.xml Thu Nov 02 16:24:48 2017 -0400 |
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| @@ -1,8 +1,8 @@ <?xml version="1.0"?> -<tool id="dunovo" name="Du Novo: Make consensus reads" version="2.0.6"> +<tool id="dunovo" name="Du Novo: Make consensus reads" version="2.0.8"> <description>from duplex sequencing alignments</description> <requirements> - <requirement type="package" version="2.0.6">dunovo</requirement> + <requirement type="package" version="2.0.8">dunovo</requirement> <!-- TODO: require Python 2.7 --> </requirements> <version_command>dunovo.py --version</version_command> |
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| diff -r 000969829a5d -r 23f5d9316694 make_families.xml --- a/make_families.xml Fri Oct 27 12:50:39 2017 -0400 +++ b/make_families.xml Thu Nov 02 16:24:48 2017 -0400 |
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| @@ -1,8 +1,8 @@ <?xml version="1.0"?> -<tool id="make_families" name="Du Novo: Make families" version="2.0.6"> +<tool id="make_families" name="Du Novo: Make families" version="2.0.8"> <description>of duplex sequencing reads</description> <requirements> - <requirement type="package" version="2.0.6">dunovo</requirement> + <requirement type="package" version="2.0.8">dunovo</requirement> </requirements> <!-- TODO: Add dependency on coreutils to get paste? --> <version_command>dunovo.py --version</version_command> |
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| diff -r 000969829a5d -r 23f5d9316694 tool_dependencies.xml --- a/tool_dependencies.xml Fri Oct 27 12:50:39 2017 -0400 +++ b/tool_dependencies.xml Thu Nov 02 16:24:48 2017 -0400 |
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| @@ -9,13 +9,13 @@ <package name="mafft" version="7.221"> <repository changeset_revision="15974dd17515" name="mafft" owner="rnateam" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> - <package name="networkx" version="1.11"> + <package name="networkx" version="1.10"> <repository changeset_revision="e761775277c1" name="package_networkx_1_10" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> - <package name="dunovo" version="2.0.6"> + <package name="dunovo" version="2.0.8"> <install version="1.0"> <actions> - <action sha256sum="3d628d297767f9836ab57ef738b2b29f588c36df8c43ec6814ea97e29da1d5ec" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v2.0.6.tar.gz</action> + <action sha256sum="4c105e29eff271b9e32f12c5d2862b717ba960981f4820dae26e159e2a0ed33d" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v2.0.8.tar.gz</action> <action type="shell_command">make</action> <action type="move_directory_files"> <source_directory>.</source_directory> |