I'm getting back on this discussion. I have also problems with " could not open genome file GENOME_data/star//genomeParameters.txt" The problem is that i use STAR to map CHIP-seq data (using the method of an article already published). ...
ErrorCode=ParquetJavaInvocationException,'Type=Microsoft.DataTransfer.Common.Shared.HybridDeliveryException,Message=An error occurred when invoking java, message: java.io.IOException:Could not read footer: java.io.IOException: Could not read footer for file FileStatus{path=yellow_tripdata_2023-02.par...
STAR --runThreadN 5 --genomeDir /Users/genome_Dir --readFilesIn /Users/data/Rna_seq_hl_nm/RNA-seq_HL_SVI_0h_rep1.fastqsanger.gz /Users/data/Rna_seq_hl_nm/RNA-seq_HL_SVI_0h_rep2.fastqsanger.gz --readFilesCommand zcat --sjdbGTFfile /Users/genome_Dir/GRCh38.p13_genomic.gtf -...
AlertsNoReadown field AlertsNotItem field AlertSPAlertDeliveryChannels_Email field AlertSPAlertDeliveryChannels_Sms field AlertsPropertyBagCouldNotBeInitialized field AlertsPropertyCannotBeChanged field AlertsPropertyNotAvailableOnPendingAlert field AlertsPropertyNotSet field AlertsQueryTagMoreThanOnceError field Ale...
(The maximum number of open file descriptors (most systems do not allow this value to be set) Star seems to open many temporary files and once the limit is reached, no more files can be created, hence the error. To avoid the error on larger multicore machines, increase the limit to >...