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pauline-ng / SIFT4G_Create_Genomic_DB

Create genomic databases with SIFT predictions. Input is an organism's genomic DNA (.fa) file and the gene annotation file (.gtf). Output will be a database that can be used with SIFT4G_Annotator.jar to annotate VCF files.
GNU General Public License v3.0
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no data #47

Closed BaHole closed 3 years ago

pauline-ng commented 3 years ago

Can you list the folders and their contents with file sizes?

Perhaps there are empty files, and you're not getting the appropriate error.

pauline-ng commented 3 years ago

It's still running? Wait for it to finish running then.

Results will be in $PARENT_DIR/$ORG_VERSION (which you set in the config input file)

pauline-ng commented 3 years ago

Did you install sift4g? Please install sift4g.

It's strange that your error message says

/wtmp/user026/soft/sift4g/bin/sift4g-t 24

did you mean to put a space in between

/wtmp/user026/soft/sift4g/bin/sift4g -t 24

for the SIFT4G path in the input file? (I've never tested multithreading with sift4g, so I don't know if the -t option works).

pauline-ng commented 3 years ago

When did you make the fix? 2 days ago or just today? (The above screenshot looks correct; the screenshot from 21 hours ago does NOT look correct).

My computer I have to wait 3 days for human genome to finish running, I don't know how fast your computer is. So you will have to wait a few days after you've may made the correction.

pauline-ng commented 3 years ago

You need to wait for it to finish. It takes a few days.