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cannot create my custom database

Open jxlabWzZ opened this issue 4 years ago • 3 comments

hi, i installed the latest version of adVNTR (v1.32) using miniconda: conda install -c bioconda advntr, and erverything is well but i cannot add (create) a new .db ohh! i created a new folder : vntr_data

my code is : advntr addmodel -r sus.fa -p GGGGTCATG -s 14859 -e 14889 -c chr1

error info: Traceback (most recent call last): File "/home/miniconda2/envs/py36/bin/advntr", line 11, in sys.exit(main()) File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/main.py", line 138, in main add_model(args, addmodel_parser) File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/advntr_commands.py", line 184, in add_model create_vntrs_database(settings.TRAINED_MODELS_DB) File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/models.py", line 115, in create_vntrs_database ''') sqlite3.OperationalError: disk I/O error

it will generate a new file (hg19_selected_VNTRs_Illumina.db) under vntr_data, if change the permission to 777 (chmod 777 *) ,another error encounterd:

Traceback (most recent call last): File "/home/miniconda2/envs/py36/bin/advntr", line 11, in sys.exit(main()) File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/main.py", line 138, in main add_model(args, addmodel_parser) File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/advntr_commands.py", line 186, in add_model vntr_id = get_largest_id_in_database() + 1 File "/home/miniconda2/envs/py36/lib/python3.6/site-packages/advntr/models.py", line 207, in get_largest_id_in_database cursor.execute('''SELECT MAX(id) FROM vntrs''') sqlite3.OperationalError: disk I/O error

although,I saw the same question, I didn't get any exact solution。 Thank you in advance

jxlabWzZ avatar Oct 26 '19 13:10 jxlabWzZ