add torch tmp

Author: nilchia

tools/flexynesis/flexynesis.xml

@@ -13,6 +13,7 @@
     </required_files>
     <command detect_errors="exit_code"><![CDATA[
         @CHECK_NON_COMMERCIAL_USE@
+        export TORCHINDUCTOR_CACHE_DIR=/tmp/torch_cache &&
         mkdir -p input/test input/train output &&
         ln -s '$train_clin' input/train/clin.tabular &&
         python '$__tool_directory__/convert.py' input/train/clin.tabular input/train/clin.csv &&

tools/flexynesis/flexynesis_cbioportal_import.xml

@@ -18,6 +18,7 @@
                             'soft_tissue_tcga_gdc', 'stad_tcga_gdc', 'thpa_tcga_gdc', 'thym_tcga_gdc', 'ucec_tcga_gdc',
                             'ucs_tcga_gdc', 'uec_cptac_gdc', 'um_tcga_gdc', 'wt_target_gdc']
         @CHECK_NON_COMMERCIAL_USE@
+        export TORCHINDUCTOR_CACHE_DIR=/tmp/torch_cache &&
         mkdir -p output/data output/meta &&
         python '$cbio_config' &&
         mv $str($study_id)/data* output/data/ &&

tools/flexynesis/flexynesis_plot.xml

@@ -9,6 +9,7 @@
     </required_files>
     <command detect_errors="exit_code"><![CDATA[
         @CHECK_NON_COMMERCIAL_USE@
+        export TORCHINDUCTOR_CACHE_DIR=/tmp/torch_cache &&
         mkdir -p inputs/ plots/ &&
         #if str($plot_conditional.plot_type) != 'cox_plot':
             ln -s '$plot_conditional.labels' inputs/labels.tabular &&

tools/flexynesis/flexynesis_utils.xml

@@ -10,6 +10,7 @@
     </required_files>
     <command detect_errors="exit_code"><![CDATA[
         @CHECK_NON_COMMERCIAL_USE@
+        export TORCHINDUCTOR_CACHE_DIR=/tmp/torch_cache &&
         mkdir -p inputs/ output/ &&
         #if $utils_conditional.util != "compute_ami_ari" and $utils_conditional.util != "split_data" and $utils_conditional.util != "binarize" and $utils_conditional.util != "recursive_binary_split":
             ## flexynesis coexpression recognizes .tsv instead of .tabular, so we create a symlink with the appropriate extension