DriverML
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Error: cannot open the connection
When Running DriverML, I get the following error even after using the absolute path. combined_mak.txt
Please help
./run.driverml.sh -w /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML -i /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML/combined_mak.txt -f /mnt/d/2046llc/CancerPipe/resources/chrM.fasta -r /mnt/d/2046llc/CancerPipe/resources/resources_broad_hg38_v0_Homo_sapiens_assembly38.fasta -o rohit
Final cluster number is 1
interpolation number is 100
./run.driverml.sh: line 208: 1396 Killed $path/cluster.r $interpolation_number $cluster_final ${date}
Can't open '02_08_16_22_49_387393511_gene-class.tmp' for reading: 'No such file or directory' at /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML/pre-drgap.pl line 16
./run.driverml.sh: line 213: 1413 Killed $path/cluster.r $interpolation_number 1 ${date_pre}
Can't open 'pre_02_08_16_22_49_387393511_gene-class.tmp' for reading: 'No such file or directory' at /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML/pre-drgap.pl line 16
The file you sepcified does not exist at /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML/reduction.pl line 43.
The file you sepcified does not exist at /mnt/d/2046llc/CancerPipe/test/mskcc-vcf2maf-754d68a/DriverML/reduction.pl line 43.
used (Mb) gc trigger (Mb) max used (Mb)
Ncells 262390 14.1 641325 34.3 431169 23.1
Vcells 442862 3.4 8388608 64.0 1753648 13.4
Error in file(file, "rt") : cannot open the connection
Calls: read.table -> file
In addition: Warning message:
In file(file, "rt") :
cannot open file 'pre_02_08_16_22_49_387393511_subclass-1.tmp_exp.tmp': No such file or directory
Execution halted
There was an error opening the eta file.
Error in file(file, "rt") : cannot open the connection
Calls: read.table -> file
In addition: Warning message:
In file(file, "rt") :
cannot open file '02_08_16_22_49_387393511_out_file_1.tmp': No such file or directory
Execution halted
02_08_16_22_49_387393511