Seungmo Lee

[metadata] name = mavis version = 3.0.0 url = https://github.com/bcgsc/mavis.git download_url = https://github.com/bcgsc/mavis/archive/v2.2.10.tar.gz description = A Structural Variant Post-Processing Package author_email = [email protected] author = Caralyn Reisle maintainer_email = [email protected]...

I tried running the mini-tutorial.config.json and I followed all the instructions on mavis website, and got error below. (base) [seichang@login3 project-zarlab]$ snakemake -j 1 --configfile=tests/mini-tutorial.config.json -s Snakefile Building DAG of...

Hello, Thank you for the comment. Are there any updates on the PR that's targeted to fix the issue stemming from the tabulate dependency issue? Thank you for your help.

Thank you for your help @ziphra and @zhemingfan I followed the above instruction, and I run the mini tutorial and still got the following error. Building DAG of jobs... Using...

Hello, I installed the new version 3.1.0, and ran the mini tutorial and got this error. (base) [seichang@login4 mavis]$ snakemake -j 1 --configfile=tests/mini-tutorial.config.json -s Snakefile Building DAG of jobs... Using...

I have looked through each line of work.sh and came to a conclusion that /u/home/m/mdistler/project-zarlab/consensus/nextsv_output2/minimap2_bam/minimap2_bam2cram.sh is causing a problem, and this error just descends down. I have converted our BAM...

I used the command: python nextsv2.py nextsv.cfg nextsv_output /u/home/m/mdistler/project-zarlab/mouseBAM

Upgrading to samtools1.16.1 creates a new error message Here are the commands I used: python nextsv2.py nextsv.cfg nextsv_output /u/home/m/mdistler/project-zarlab/mouseBAM ./work.sh Here is the error message. There seems to be an...

Hello, Thank you for updating it to the new version nextsv3. I downloaded and ran the work.sh and got following error.

Hello, I used a .fa file for the reference file, which uses a fasta formatting Sincerely, Seungmo Lee