vacationlesno.blogg.se - Unable to delete temp files

"/share/pkg/star/2.7.0e/bin/STAR -genomeDir.

(ii) if you specified -outTmpDir, and this directory exists - please remove it before running STAR SOLUTION: (i) please check the path and writing permissions test_results/G20P1sc-C08-res.temp/G20P1sc-C08-res -readFilesCommand zcat -readFilesIn ĮXITING because of fatal ERROR: could not make temporary directory.

genome_indices/rsem-star -outSAMunmapped Within -outFilterType BySJout -outSAMattributes NH HI AS NM MD -outFilterMultimapNmax 20 -outFilterMismatchNmax 999 -outFilterMismatchNoverLmax 0.04 -alignIntronMin 20 -alignIntronMax 1000000 -alignMatesGapMax 1000000 -alignSJoverhangMin 8 -alignSJDBoverhangMin 1 -sjdbScore 1 -runThreadN 4 -genomeLoad NoSharedMemory -outSAMtype BAM Unsorted -quantMode TranscriptomeSAM -outSAMheaderHD VN:1.4 SO:unsorted -outFileNamePrefix. share/pkg/star/2.7.0e/bin/STAR -genomeDir. test_results/G20P1sc-C05-res.temp" failed! Plase check if you provide correct parameters/options for the pipeline! This is the error part of the output Expression Results are written! This is my code for prefix in $(ls *.fastq.gz | rev | cut -c 12-| rev | uniq)

I am running on the same number of nodes as the threads requested.

I am trying to map reads with rsem-calculate-expression using STAR aligner using a loop, however I am getting an error of the STARtemp folder not being deleted after the first run, hence it is stopping the next run.