Describe the bug
The following projects are used to validate microSALT: MIC3109, MIC4107, MIC4109 & ACC5551.
Only ACC5551 can be found in statusDB/housekeeper.
ACC5551 has spring-compressed samples that cannot be decompressed with cg decompress. On closer inspection, the case is a mix of validation and routine samples. May be a good idea to have a separate case for the validation samples only.
Expected behavior
All cases and samples should be available for validations in cg.
Additional context
Updating compress api
Set dry run to False
Fetch latest version from bundle ACC5551A31
Found file /home/proj/production/demultiplexed-runs/190417_A00621_0064_AHJM7JDSXX/Unaligned-Y151I10I10Y151/Project_609108/Sample_ACC5551A31/HJM7JDSXX_609108_S313_L004.spring
Found file /home/proj/production/demultiplexed-runs/190417_A00621_0064_AHJM7JDSXX/Unaligned-Y151I10I10Y151/Project_609108/Sample_ACC5551A31/HJM7JDSXX_609108_S313_L002.spring
Found file /home/proj/production/demultiplexed-runs/190417_A00621_0064_AHJM7JDSXX/Unaligned-Y151I10I10Y151/Project_609108/Sample_ACC5551A31/HJM7JDSXX_609108_S313_L001.spring
Found file /home/proj/production/demultiplexed-runs/190417_A00621_0064_AHJM7JDSXX/Unaligned-Y151I10I10Y151/Project_609108/Sample_ACC5551A31/HJM7JDSXX_609108_S313_L003.spring
Check if pending compression file exists
/home/proj/production/demultiplexed-runs/190417_A00621_0064_AHJM7JDSXX/Unaligned-Y151I10I10Y151/Project_609108/Sample_ACC5551A31/HJM7JDSXX_609108_S313_L004.crunchy.pending.txt does not exist
Check if SPRING archive file exists
Check if FASTQ pair exists
FASTQ files already exists
SPRING to FASTQ decompression not possible for ACC5551A31
Skipping sample ACC5551A31
Describe the bug The following projects are used to validate microSALT: MIC3109, MIC4107, MIC4109 & ACC5551.
cg decompress
. On closer inspection, the case is a mix of validation and routine samples. May be a good idea to have a separate case for the validation samples only.Expected behavior All cases and samples should be available for validations in cg.
Additional context