
Marc Crepeau
- Total activity 10
- Last activity
- Member since
- Following 0 users
- Followed by 0 users
- Votes 0
- Subscriptions 3
Activity overview
Latest activity by Marc Crepeau-
Marc Crepeau commented,
That's great! Thanks for your help!
-
Marc Crepeau commented,
Ok, I've uploaded the required files: mini.tar.gz
-
Marc Crepeau commented,
First thing to mention is that using the workaround of setting --assembly-region-padding to 1000 still results in failure for at least some of the BAM files (others are still running as of this mor...
-
Marc Crepeau commented,
I am getting a similar crash with identical error messages, also when running GATK 4.4.0 HaplotypeCaller with the --alleles option. I have 12 samples (12 BAM files) and I am trying to genotype the...
-
Marc Crepeau created a post,
Where are the sample-level annotations?
How do I get GATK to write the sample-level annotations to my VCF file? Most VCF files I've worked with have a header that includes FORMAT and then the names of each of my samples. Then each reco...
-
Marc Crepeau commented,
Okay, this was my bad. The problem was, in fact, the java version. It worked fine when I switched to java version 1.8. To roll my Mac back to that version I used the excellent instructions here:...
-
Marc Crepeau created a post,
Cromwell stuck at WaitingForReturnCode on Mac
I am using Cromwell version 55 on a MacBook Pro running OS 10.15.7 (Catalina). I thought I'd learn to use Cromwell, so I started with the 5-minute introduction tutorial found here: https://cromwel...