| Previous changeset 2:f8d88dcef64e (2020-02-13) Next changeset 4:d6389faa75ff (2020-02-16) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit f14f2bae2b27dc04e574803c7d4442a64cfe43e4" |
|
modified:
hyphy_busted.xml macros.xml |
| b |
| diff -r f8d88dcef64e -r 1d8b63d18f30 hyphy_busted.xml --- a/hyphy_busted.xml Thu Feb 13 15:00:14 2020 -0500 +++ b/hyphy_busted.xml Fri Feb 14 16:43:12 2020 -0500 |
| [ |
| @@ -1,5 +1,5 @@ <?xml version="1.0"?> -<tool id="hyphy_busted" name="HyPhy-BUSTED" version="@VERSION@+galaxy0"> +<tool id="hyphy_busted" name="HyPhy-BUSTED" version="@VERSION@+galaxy1"> <description>Branch-site Unrestricted Statistical Test for Episodic Diversification</description> <macros> <import>macros.xml</import> @@ -8,11 +8,12 @@ <command detect_errors="exit_code"><![CDATA[ ln -s '$input_file' busted_input.fa && ln -s '$input_nhx' busted_input.nhx && - @HYPHY_INVOCATION@ busted + hyphy busted --alignment ./busted_input.fa --tree ./busted_input.nhx --code $gencodeid --branches '$branches' + --output '$busted_output' > '$busted_log' ]]></command> <inputs> @@ -22,7 +23,7 @@ </inputs> <outputs> <data name="busted_log" format="txt"/> - <data name="busted_output" format="hyphy_results.json" from_work_dir="busted_input.fa.BUSTED.json"/> + <data name="busted_output" format="hyphy_results.json" /> </outputs> <tests> <test> |
| b |
| diff -r f8d88dcef64e -r 1d8b63d18f30 macros.xml --- a/macros.xml Thu Feb 13 15:00:14 2020 -0500 +++ b/macros.xml Fri Feb 14 16:43:12 2020 -0500 |
| [ |
| @@ -80,6 +80,7 @@ <yield/> </requirements> </xml> + <token name="@HYPHYMPI@">mpirun -np \${GALAXY_SLOTS:-1} HYPHYMPI</token> <token name="@HYPHY_ENVIRONMENT@"><![CDATA[export HYPHY=`which hyphy` && export HYPHY_PATH=`dirname \$HYPHY` && export HYPHY_LIB=`readlink -f \$HYPHY_PATH/../lib/hyphy` &&]]></token> |