Need garbage collection

[ilveroluca]

some of our tools are leaving files behind and they're not getting deleted. Here's an example:

root@pugnacious-garfish-galaxy-stable-6486bf5c59-hzvz5:/export/database/job_working_directory/001/1186# find dataset_3647_files
dataset_3647_files
dataset_3647_files/i_Investigation.txt
dataset_3647_files/s_MTBLS9.txt
dataset_3647_files/a_mtbls9_np1d_NMR spectroscopy.txt
dataset_3647_files/m_mtbls9_cpmgpr_NMR_spectroscopy_v2_maf.tsv
dataset_3647_files/a_mtbls9_cpmgpr_NMR_spectroscopy.txt

We need to either find the tool(s) and modify it (this might be the downloader?) or activate/implement some suitable garbage collection in the container.

[ilveroluca]

another example:

root@pugnacious-garfish-galaxy-stable-6486bf5c59-hzvz5:/export/database/job_working_directory/002# ll 2000/working/outputfolder/
total 6
-rw-r--r-- 1 root root 1065 Jul 26 07:22 1_746.022_716.5434_1571995.68000003_PE_PG_AutoMS_2-B_3_03_18583.mzML.txt
-rw-r--r-- 1 root root 1069 Jul 26 07:22 2_746.022_716.5434_1571995.68000003_PE_PG_AutoMS_2-B_3_03_18583.mzML.txt
-rw-r--r-- 1 root root 1066 Jul 26 07:22 3_746.022_716.5434_1571995.68000003_PE_PG_AutoMS_2-B_3_03_18583.mzML.txt
-rw-r--r-- 1 root root 1068 Jul 26 07:22 4_746.022_716.5434_1571995.68000003_PE_PG_AutoMS_2-B_3_03_18583.mzML.txt

[pcm32]

Maybe the composite data type is responsible of the first example?

Check that the setting for deleting data set is set to always and not "never" or "onslSuccess" for example 2.