Comments (2)
Hey @amizeranschi , thank you for highlighting that. The problem refers to the gtf provided more than to the --gencode option. The pipeline has been designed to work with all the genomes and annotations, so we are going to fix that issue by changing some default options in the configuration file, leaving those IDs only for testing purpose.
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Could you please share a bit of info about how this issue has been fixed?
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Related Issues (20)
- contrast file problem? HOT 7
- EXITING because of FATAL ERROR: Genome version: 20201 is INCOMPATIBLE with running STAR version: 2.7.9a HOT 2
- MISO error HOT 3
- The processes for splitting files are running very slowly with large numbers of input samples HOT 5
- Error: suppa_split_file.R Input_file must contain samplesheet samples. HOT 2
- ERROR ~ Error executing process > 'NFCORE_RNASPLICE:RNASPLICE:DRIMSEQ_DEXSEQ_DTU_SALMON:DRIMSEQ_FILTER (1)' HOT 11
- Error in DRIMSeq::dmDSdata(counts = counts, samples = samps) HOT 3
- Error single-end execution HOT 1
- Error in SUPPA: Clustergroups are assigned incorrectly HOT 4
- Miso error HOT 10
- `NFCORE_RNASPLICE:RNASPLICE:DRIMSEQ_DEXSEQ_DTU_SALMON:DEXSEQ_DTU (1)` HOT 7
- RNA splice output
- Merged genes output HOT 3
- DRIMSEQ_DEXSEQ_DTU_SALMON:DRIMSEQ_FILTER not working with special characters in sample names
- AWSmegatests are failing HOT 5
- Spare memory for samtools issue HOT 1
- Implement IsoformSwitchAnalyzeR HOT 2
- Miso ERROR HOT 12
- Error executing process > 'NFCORE_RNASPLICE:RNASPLICE:EDGER_DEU:SUBREAD_FEATURECOUNTS (SRX12134688)', Caused by: Process `NFCORE_RNASPLICE:RNASPLICE:EDGER_DEU:SUBREAD_FEATURECOUNTS (SRX12134688)` terminated with an error exit status (255) HOT 32
- Error executing process > 'NFCORE_RNASPLICE:RNASPLICE:RMATS:CREATE_BAMLIST_SINGLE (1)' caused by: No such variable: bam -- Check script '/home/tud03125/.nextflow/assets/nf-core/rnasplice/./workflows/../subworkflows/local/../../modules/local/create_bamlist_single.nf' at line: 20 HOT 1
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