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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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annotate file error, no output #42

Closed zhansia closed 2 years ago

zhansia commented 3 years ago

Hi, pauline Ng, I have successfully run the SIFT 4G annotater, but the output file is empty, below is the command while running: can u give me some advise on how to solved this problem? tq

Chromosome WithSIFT4GAnnotations WithoutSIFT4GAnnotations Progress The following chromosomes (or scaffolds/contigs) are not found in the SIFT 4G database and will not be annotated: 1 Please contact us if you have any questions. /home/FYPuser/zhan/SIFT4G_Create_Genomic_DB-master/test_files/SARS/ASM985889v3/1.regions does not exist 1 0 50 Completed : 1/1

Merging temp files.... SIFT4G Annotation completed !

pauline-ng commented 3 years ago

Please confirm the database has been built correctly.

Follow instructions here: https://github.com/pauline-ng/SIFT4G_Create_Genomic_DB#check-the-database