Hello.
I followed the Usage section in the README.
Specifically, I cloned this repository and rewrote the following four lines in config/config.yml to point at my local hg38 files.
|
path_genome_folder: /Users/ilya/Projects/quaich/resources/genome/ |
|
path_genome_fasta: /Users/ilya/Projects/quaich/resources/genome/hg38/hg38.fa |
|
chromsizes: /Users/ilya/Projects/quaich/resources/genome/hg38/hg38_chromsizes.txt |
|
view: /Users/ilya/Projects/quaich/resources/test_view.txt |
Then, I proceeded to Step 4.
Dry-run snakemake --use-conda --configfile config/config.yml -n has been done successfully.
However, snakemake --use-conda --configfile config/config.yml --cores 10 raises the following error from cooltools/lib/checks.py:
ValueError: View table is out of the bounds of chromosomes in cooler.
The version of cooltools after the Usage Step 3 is 0.5.1.
I would appreciate if I could resolve this error.
Do I have to change more lines in the config files?
Hello.
I followed the Usage section in the README.
Specifically, I cloned this repository and rewrote the following four lines in
config/config.ymlto point at my local hg38 files.quaich/config/config.yml
Lines 2 to 5 in a50deb3
Then, I proceeded to Step 4.
Dry-run
snakemake --use-conda --configfile config/config.yml -nhas been done successfully.However,
snakemake --use-conda --configfile config/config.yml --cores 10raises the following error fromcooltools/lib/checks.py:ValueError: View table is out of the bounds of chromosomes in cooler.The version of
cooltoolsafter the Usage Step 3 is 0.5.1.I would appreciate if I could resolve this error.
Do I have to change more lines in the config files?