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rki-mf1 / covsonar

A database-driven system for handling genomic sequences of SARS-CoV-2 and screening genomic profiles.
GNU General Public License v3.0
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Update to [covSonar 1.1.4] - [merged] #47

Closed silenus092 closed 2 years ago

silenus092 commented 2 years ago

In GitLab by @kunaphas.kon on Mar 10, 2022, 11:16

Merges fix/v.1 -> master

In covSonar V.1.1.4

Improvement

1. Quick fix on env. problem.

There is a new problem while we want to create a new covSonar environment. The problem came from during 'conda env create'. The libiconv.so.2. file, it appears that this was missing. Then, it causes the following error message;

> > ib/covsonar/lib/ref.fna -gapopen=16 -gapextend=4 -aformat=fasta', 
> > message
> > '_stretcher: error while loading
> > shared libraries: **libiconv.so.2**: cannot open shared object file: No 
> > such file or directory'

So, we just append - libiconv=1.16 with the latest version

2. Improve var2vcf performance

New Features

None

Fix Bugs

1. #25 Fixed incorrect SQL construction , now it works correctly.💪

silenus092 commented 2 years ago

In GitLab by @kunaphas.kon on Mar 10, 2022, 11:21

added 1 commit

Compare with previous version

silenus092 commented 2 years ago

In GitLab by @kunaphas.kon on Mar 10, 2022, 11:46

requested review from @s.fuchs

silenus092 commented 2 years ago

In GitLab by @s.fuchs on Mar 10, 2022, 13:02

mentioned in commit b4a3cbe307e8094582c2cdcc59789ef347d1b255