Mercurial > repos > iuc > cherri_train
changeset 3:a30b9df1775a draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cherri commit 8778c3f71e295ec5b62ef3998319d211fc864e35
| author | iuc |
|---|---|
| date | Wed, 25 Jan 2023 18:33:19 +0000 |
| parents | ed0efb924438 |
| children | |
| files | cherri_train.xml macros.xml |
| diffstat | 2 files changed, 8 insertions(+), 3 deletions(-) [+] |
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--- a/cherri_train.xml Mon Jan 09 19:50:32 2023 +0000 +++ b/cherri_train.xml Wed Jan 25 18:33:19 2023 +0000 @@ -1,14 +1,14 @@ -<tool id="cherri_train" name="Train a CheRRI model using RRIs" version="@VERSION@" profile="@PROFILE@"> +<tool id="cherri_train" name="Train a CheRRI model using RRIs" version="@VERSION@+galaxy@SUFFIX_VERSION@" profile="@PROFILE@"> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="exit_code"><![CDATA[ export PYTHONHASHSEED=31337 && - mkdir mixed_model && #set experiments = [] #for $experiment in $rep_experiment: mkdir $experiment.exp_name && + mkdir '$experiment.exp_name/tmp' && ln -s '$experiment.ref_source.genome_fasta' '$experiment.exp_name/genome.fa' && $experiments.append(str($experiment.exp_name)) #set replicates = [] @@ -26,9 +26,11 @@ -i2 '$experiment.occupied_regions' #end if -o . - -on '$experiment.exp_name' + -on '$experiment.exp_name' + -tp '$experiment.exp_name/tmp' @COMMONPARAMS@ && #if len($rep_experiment) > 1: + mkdir -p mixed_model && ln -s '../$experiment.exp_name' 'mixed_model/$experiment.exp_name' && #else: ln -s $experiment.exp_name/model/optimized/full_${experiment.exp_name}_context_${context}.model final_full.model && @@ -40,6 +42,7 @@ #end if #end for #if len($rep_experiment) > 1: + mkdir mixed_model/tmp && cherri train -mi on -i1 mixed_model @@ -49,6 +52,7 @@ -n mixed -o . -on mixed_model + -tp mixed_model/tmp @COMMONPARAMS@ && ln -s mixed_model/mixed/model/optimized/full_mixed_context_${context}.model final_full.model && #if $use_structure == 'off':