Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

optimized TSV experiment, and range GQ dropping #6987

Merged
merged 3 commits into from
Dec 8, 2020
Merged

Conversation

kcibul
Copy link
Contributor

@kcibul kcibul commented Dec 2, 2020

No description provided.

@@ -458,7 +458,7 @@ task SNPsVariantRecalibrator {

MODEL_REPORT=~{model_report}

gatk --java-options -Xms~{java_mem}g \
gatk --java-options -Xmx~{java_mem}g \
Copy link
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

can you add a comment here on why we are setting the max?

@gatk-bot
Copy link

gatk-bot commented Dec 2, 2020

Travis reported job failures from build 32317
Failures in the following jobs:

Test Type JDK Job ID Logs
conda openjdk8 32317.5 logs

@kcibul kcibul merged commit 46135b6 into ah_var_store Dec 8, 2020
@kcibul kcibul deleted the kc_ngs_extract branch December 8, 2020 20:22
@gatk-bot
Copy link

gatk-bot commented Dec 8, 2020

Travis reported job failures from build 32347
Failures in the following jobs:

Test Type JDK Job ID Logs
conda openjdk8 32347.5 logs

kcibul added a commit that referenced this pull request Jan 29, 2021
* optimized TSV experiment, and range GQ dropping
* typos
* PR comment
kcibul added a commit that referenced this pull request Feb 1, 2021
* optimized TSV experiment, and range GQ dropping
* typos
* PR comment
Marianie-Simeon pushed a commit that referenced this pull request Feb 16, 2021
* optimized TSV experiment, and range GQ dropping
* typos
* PR comment
kcibul added a commit that referenced this pull request Mar 9, 2021
* optimized TSV experiment, and range GQ dropping
* typos
* PR comment
mmorgantaylor pushed a commit that referenced this pull request Apr 6, 2021
* optimized TSV experiment, and range GQ dropping
* typos
* PR comment
This was referenced Mar 17, 2023
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

3 participants