After running a gird engine job for kallisto, in my output only abundance.h5 file has been produced. Does anyone have any idea why the abundances.tsv and run_info.json output files are missing (copy of script below)? Could this indicate that the job did not run properly and could effect my downstream analysis? Thanks!
kallisto quant -i /users/k1456980/brc_scratch/SNCID/PFC/mapping_PFC/references/kallisto_index_RefSeq.idx -o /users/k1456980/brc_scratch/SNCID/PFC/mapping_PFC/refseq/C"$SGE_TASK_ID" -b 100 --pseudobam C"$SGE_TASK_ID"_FP.fastq.gz C"$SGE_TASK_ID"_RP.fastq.gz