Carol

Thank you! It worked like a charm!

> Update: > > I created a empty folder 'config' and it worked! > > Thank you very much Hi, did you create this folder in your working directory? I´m...

Hi, 1. I´m running V-pipe with this command: ./vpipe --jobs 4 --printshellcmds --dry-run 2. I created the samples directory following the structure listed. 3. I´m not giving the samples.tsv since...

Hi, I managed to start running the program with the changes you suggested on the config file. (Thanks!) I see that in my results/SNVs folder the shorah.log files show no...

Hello, I ran the pipeline successfully, it lasted around 18 days. Since I was doing a run test I only set to obtain local haplotypes and now would like to...

Hi, Thanks for your kind reply. I tried to run savage but It gives me this error: PaddingError: Placeholder of length '80' too short in package /home/geninfo/msisco/V-pipe/workflow/.snakemake/conda/a5fe929f836a61b822bde39a31846bbe/bin/Rscript. The package must...

Hello, I see you made this question almost a year ago but I´m having a similar issue: VPIPE_BASEDIR = /home/geninfo/msisco/V-pipe/workflow ModuleNotFoundError in line 21 of /home/geninfo/msisco/V-pipe/workflow/rules/common.smk: No module named 'snakemake.sourcecache'...

Hi, thank you for your reply. The snakemake version that was downloaded (following V-pipe installation manual) was 3.13.3. How can I upgrade it inside my V-pipe conda environment? Also I´m...

Hi, I deleted the current install and re-installed it using the quick install script. However when running dry--run I get this error: FileNotFoundError in line 279 of /home/geninfo/msisco/V-pipe/workflow/rules/comm [Errno 2]...

Hi, I keep getting this error: VPIPE_BASEDIR = /home/geninfo/msisco/V-pipe/workflow No virus base configuration, using defaults AttributeError in line 230 of /home/geninfo/msisco/V-pipe/workflow/rules/common.smk: 'NoneType' object has no attribute 'setdefault' File "/home/geninfo/msisco/V-pipe/workflow/Snakefile", line...