Mercurial > repos > fubar > differential_count_models
comparison tool_dependencies.xml @ 115:badcd3b0e708 draft
Uploaded
| author | fubar |
|---|---|
| date | Thu, 23 Oct 2014 01:31:34 -0400 |
| parents | 616c780f69a6 |
| children | b0d21688db8e |
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| 114:616c780f69a6 | 115:badcd3b0e708 |
|---|---|
| 7 <repository changeset_revision="2fd4eb971ba5" name="package_graphicsmagick_1_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> | 7 <repository changeset_revision="2fd4eb971ba5" name="package_graphicsmagick_1_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 8 </package> | 8 </package> |
| 9 <package name="ghostscript" version="9.10"> | 9 <package name="ghostscript" version="9.10"> |
| 10 <repository changeset_revision="9345d2740f0c" name="package_ghostscript_9_10" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> | 10 <repository changeset_revision="9345d2740f0c" name="package_ghostscript_9_10" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 11 </package> | 11 </package> |
| 12 <package name="libxml2" version="2.9.1"> | |
| 13 <repository changeset_revision="926b471a2e43" name="package_libxml2_2_9_1" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> | |
| 14 </package> | |
| 12 | 15 |
| 13 <package name="biocbasics" version="2.14"> | 16 <package name="biocbasics" version="2.14"> |
| 14 <install version="1.0"> | 17 <install version="1.0"> |
| 15 <actions> | 18 <actions> |
| 16 <action type="setup_r_environment"> | 19 <action type="setup_r_environment"> |
| 17 <repository changeset_revision="6ca21e466ef6" name="package_r_3_1_1" owner="fubar" toolshed="https://testtoolshed.g2.bx.psu.edu"> | 20 <repository changeset_revision="6ca21e466ef6" name="package_r_3_1_1" owner="fubar" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 18 <package name="R_3_1_1" version="3.1.1" /> | 21 <package name="R_3_1_1" version="3.1.1" /> |
| 19 </repository> | 22 </repository> |
| 20 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/getopt_1.20.0.tar.gz?raw=true</package> | 23 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/getopt_1.20.0.tar.gz?raw=true</package> |
| 24 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/digest_0.6.4.tar.gz?raw=true</package> | |
| 25 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/labeling_0.3.tar.gz?raw=true</package> | |
| 26 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/colorspace_1.2-4.tar.gz?raw=true</package> | |
| 27 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/munsell_0.4.2.tar.gz?raw=true</package> | |
| 28 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/dichromat_2.0-0.tar.gz?raw=true</package> | |
| 29 | |
| 30 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/Rcpp_0.11.3.tar.gz?raw=true</package> | |
| 31 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RcppArmadillo_0.4.450.1.0.tar.gz?raw=true</package> | |
| 32 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/plyr_1.8.1.tar.gz?raw=true</package> | |
| 33 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/statmod_1.4.20.tar.gz?raw=true</package> | |
| 34 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/proto_0.3-10.tar.gz?raw=true</package> | |
| 35 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/rjson_0.2.14.tar.gz?raw=true</package> | |
| 36 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/stringr_0.6.2.tar.gz?raw=true</package> | |
| 37 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/gtable_0.1.2.tar.gz?raw=true</package> | |
| 38 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/locfit_1.5-9.1.tar.gz?raw=true</package> | |
| 39 | |
| 40 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/xtable_1.7-4.tar.gz?raw=true</package> | |
| 21 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/BiocGenerics_0.10.0.tar.gz?raw=true</package> | 41 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/BiocGenerics_0.10.0.tar.gz?raw=true</package> |
| 22 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/IRanges_1.22.10.tar.gz?raw=true</package> | 42 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/IRanges_1.22.10.tar.gz?raw=true</package> |
| 23 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/GenomicRanges_1.16.4.tar.gz?raw=true</package> | 43 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/GenomeInfoDb_1.0.2.tar.gz?raw=true</package> |
| 24 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RcppArmadillo_0.4.450.1.0.tar.gz?raw=true</package> | |
| 25 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/Rcpp_0.11.3.tar.gz?raw=true</package> | |
| 26 | 44 |
| 27 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/Biobase_2.24.0.tar.gz?raw=true</package> | 45 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/Biobase_2.24.0.tar.gz?raw=true</package> |
| 46 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/XVector_0.4.0.tar.gz?raw=true</package> | |
| 28 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RColorBrewer_1.0-5.tar.gz?raw=true</package> | 47 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RColorBrewer_1.0-5.tar.gz?raw=true</package> |
| 29 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/locfit_1.5-9.1.tar.gz?raw=true</package> | 48 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/GenomicRanges_1.16.4.tar.gz?raw=true</package> |
| 30 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/reshape2_1.4.tar.gz?raw=true</package> | 49 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/reshape2_1.4.tar.gz?raw=true</package> |
| 50 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/scales_0.2.4.tar.gz?raw=true</package> | |
| 31 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/DBI_0.3.1.tar.gz?raw=true</package> | 51 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/DBI_0.3.1.tar.gz?raw=true</package> |
| 32 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RSQLite_0.11.4.tar.gz?raw=true</package> | 52 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/RSQLite_0.11.4.tar.gz?raw=true</package> |
| 33 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/XML_3.98-1.1.tar.gz?raw=true</package> | 53 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/XML_3.98-1.1.tar.gz?raw=true</package> |
| 34 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/xtable_1.7-4.tar.gz?raw=true</package> | |
| 35 | 54 |
| 55 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/AnnotationDbi_1.26.1.tar.gz?raw=true</package> | |
| 36 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/annotate_1.42.1.tar.gz?raw=true</package> | 56 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/annotate_1.42.1.tar.gz?raw=true</package> |
| 37 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/AnnotationDbi_1.26.1.tar.gz?raw=true</package> | 57 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/geneplotter_1.42.0.tar.gz?raw=true</package> |
| 38 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/rjson_0.2.14.tar.gz?raw=true</package> | 58 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/genefilter_1.46.1.tar.gz?raw=true</package> |
| 59 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/limma_3.20.9.tar.gz?raw=true</package> | |
| 60 | |
| 39 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/DESeq2_1.4.5.tar.gz?raw=true</package> | 61 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/DESeq2_1.4.5.tar.gz?raw=true</package> |
| 40 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/edgeR_3.6.8.tar.gz?raw=true</package> | 62 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/edgeR_3.6.8.tar.gz?raw=true</package> |
| 41 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/genefilter_1.46.1.tar.gz?raw=true</package> | |
| 42 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/ggplot2_1.0.0.tar.gz?raw=true</package> | 63 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/ggplot2_1.0.0.tar.gz?raw=true</package> |
| 43 <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/limma_3.20.9.tar.gz?raw=true</package> | |
| 44 </action> | 64 </action> |
| 45 </actions> | 65 </actions> |
| 46 </install> | 66 </install> |
| 47 <readme> | 67 <readme> |
| 48 Differential gene expression analysis | 68 Differential gene expression analysis |
| 69 You may need libxml2-dev for XML to compile | |
| 49 Ubuntu has a bug with libgfortran. To fix that create a symlink like: sudo ln -s /usr/lib/x86_64-linux-gnu/libgfortran.so.3 /usr/lib/x86_64-linux-gnu/libgfortran.so | 70 Ubuntu has a bug with libgfortran. To fix that create a symlink like: sudo ln -s /usr/lib/x86_64-linux-gnu/libgfortran.so.3 /usr/lib/x86_64-linux-gnu/libgfortran.so |
| 50 </readme> | 71 </readme> |
| 51 </package> | 72 </package> |
| 52 </tool_dependency> | 73 </tool_dependency> |