Anastasios Mx

Yves, These are the results: 110901_6_12_random_1 110901_6_12_random_2 Στις Πέμ, 8 Αυγ 2019 στις 2:06 μ.μ., ο/η Yves Wetzels yveswetzels@users.sourceforge.net έγραψε: Hi Anastasios not sure what is going wrong. Can you cat the output of file './testdata/samples.txt'? Kind Regards Yves Op wo 7 aug. 2019 om 18:31 schreef Anastasios Mx anastmx@users.sourceforge.net %0Danastmx@users.sourceforge.net: Mr Yves, I commented all commands exept the "map_vs_consensus.pl". The ./run.sh returned on the VirVarSeq.log...

Mr Yves, I commented all commands exept the "map_vs_consensus.pl". The ./run.sh returned on the VirVarSeq.log (I didnt redirect the output) this: " 2019-08-07 19:27:12 ./map_vs_consensus.pl 3.0 Checking command line arguments ... Undefined subroutine &Files::openFile called at ./map_vs_consensus.pl line 44. 2019-08-07 19:27:12 ./map_vs_consensus.pl 3.1 Get sample names from file [./testdata/samples.txt]... " Thanks!

Mr Yves, Thanks for the quick response, the ls -lrt testdata/results/* command returned me this: results/map_vs_consensus: total 0 results/codon_table: total 0 results/mixture_model: total 0 results/map_vs_ref: total 1104884 -rw-r--r-- 1 ubagen-2 ubagen-2 17515360 Jul 29 16:02 110901_6_12_random_1.1.sai -rw-r--r-- 1 ubagen-2 ubagen-2 17735008 Jul 29 16:05 110901_6_12_random_1.2.sai -rw-r--r-- 1 ubagen-2 ubagen-2 530442673 Jul 29 16:05 110901_6_12_random_1.sam -rw-r--r-- 1 ubagen-2 ubagen-2 17515360...

Mr Yves, Thanks for the quick response, the ls -lrt testdata/results/* is: results/map_vs_consensus: total 0 results/codon_table: total 0 results/mixture_model: total 0 results/map_vs_ref: total 1104884 -rw-r--r-- 1 ubagen-2 ubagen-2 17515360 Jul 29 16:02 110901_6_12_random_1.1.sai -rw-r--r-- 1 ubagen-2 ubagen-2 17735008 Jul 29 16:05 110901_6_12_random_1.2.sai -rw-r--r-- 1 ubagen-2 ubagen-2 530442673 Jul 29 16:05 110901_6_12_random_1.sam -rw-r--r-- 1 ubagen-2 ubagen-2 17515360 Jul 29 16:09 110901_6_12_random_2.1.sai...

Greetings, I' am trying to run the program but i am facing some issues. I'am getting this error: Undefined subroutine &Files::openFile calles at ./map_vsconsensus.pl line 44 and after some prints Could not open ./testdata/results/map_vs_consensus/110901_6_12_random_1.sam and after some prints again... Error in file(file,"rt") : Cannot open the connection Calls: read.delim -> read.table -> file The program seems to work fine in the beggining but after a bit it fails with the above error messages....