Mercurial > repos > yhoogstrate > flaimapper
changeset 13:5e677aafc3a1 draft
Uploaded
| author | yhoogstrate |
|---|---|
| date | Thu, 19 Mar 2015 11:40:56 -0400 |
| parents | ed32b1282a17 |
| children | fb1537d04625 |
| files | README.md README.rst flaimapper.xml tool_dependencies.xml |
| diffstat | 2 files changed, 12 insertions(+), 17 deletions(-) [+] |
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--- a/flaimapper.xml Thu Mar 19 10:51:14 2015 -0400 +++ b/flaimapper.xml Thu Mar 19 11:40:56 2015 -0400 @@ -2,10 +2,7 @@ <tool id="flaimapper" name="FlaiMapper" version="1.1.2.a"> <description>Detect small ncRNA derived fragments using Fragment Location Annotation Identification Mapper.</description> <requirements> - <requirement type="package" version="0.7.7">pysam</requirement> - <!-- - <requirement type="package" version="0.8.1">pysam</requirement> - --> + <requirement type="package" version="0.8.1">pysam</requirement><!-- pysam 0.7.7 ABSOLUTELY CRASHES !!! --> <requirement type="package" version="1.1.2">flaimapper</requirement> </requirements>
--- a/tool_dependencies.xml Thu Mar 19 10:51:14 2015 -0400 +++ b/tool_dependencies.xml Thu Mar 19 11:40:56 2015 -0400 @@ -1,29 +1,27 @@ <?xml version="1.0"?> <tool_dependency> - <package name="pysam" version="0.7.7"> - <repository changeset_revision="ca10c522f37e" name="package_pysam_0_7_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> + <!-- + Because I accidentally included too much large files within the + GitHub repository of FlaiMapper it is not convenient to use git + to pull the latest code from. Downloading simply takes way to + long and the package size is unnecessairy large. + + Instead, I have created an egg that can be installed using + easy_install. + --> - <!-- <package name="pysam" version="0.8.1"> - <repository name="package_pysam_0_8_1" owner="iuc" prior_installation_required="True" /> + <repository changeset_revision="6b6843e15541" name="package_pysam_0_8_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> - --> <package name="flaimapper" version="1.1.2"> <install version="1.0"> <actions> <action type="set_environment_for_install"> - <repository changeset_revision="ca10c522f37e" name="package_pysam_0_7_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="pysam" version="0.7.7" /> - </repository> - - <!-- - <repository name="package_pysam_0_8_1" owner="iuc"> + <repository changeset_revision="6b6843e15541" name="package_pysam_0_8_1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="pysam" version="0.8.1" /> </repository> - --> </action> <action type="make_directory">$INSTALL_DIR</action>