jordanlab/stringMLST issues and pull requests

#59 - Accuracy

Issue - State: open - Opened by ralphmatar about 2 months ago - 4 comments

#58 - --getMLST fails due to SSL self-signed cert error

Issue - State: closed - Opened by mschmerer almost 3 years ago - 1 comment

#57 - ERROR while loading ST

Issue - State: closed - Opened by maesaar almost 4 years ago - 5 comments

#56 - --getMLST command error: IndexError: child index out of range

Issue - State: closed - Opened by nishantgerald about 4 years ago - 1 comment

#55 - IndexError: child index out of range

Issue - State: closed - Opened by AbatwahelQuitol about 4 years ago - 4 comments

#54 - Cut a 1.0.0 release

Issue - State: open - Opened by ar0ch about 4 years ago
Labels: enhancement

#53 - Catching errors with batch file handling

Issue - State: open - Opened by lavanyarishishwar about 4 years ago
Labels: bug, enhancement

#52 - Different allels predicted despite mapping showing they are the same

Issue - State: closed - Opened by bastian-wur almost 5 years ago - 5 comments

#51 - Memory usage balloons when building rMLST kmer-database

Issue - State: closed - Opened by jdwinkler-lanzatech about 5 years ago - 2 comments

#50 - Missing stars in output

Issue - State: open - Opened by andreott about 5 years ago

#49 - Kmer database building can't handle 'U' nucleotide

Issue - State: closed - Opened by annagaines over 5 years ago - 1 comment
Labels: wontfix

#48 - '{speciesName}' does not exist on PubMLST

Issue - State: closed - Opened by hackerzone85 over 5 years ago - 1 comment

#47 - Improve the automated MLST scheme downloader

Pull Request - State: closed - Opened by ar0ch over 5 years ago

#46 - Improved PubMLST download

Issue - State: closed - Opened by ar0ch over 5 years ago - 5 comments
Labels: enhancement

#45 - running time

Issue - State: closed - Opened by abrozzi over 5 years ago - 1 comment

#44 - Fix coverage error

Pull Request - State: closed - Opened by ar0ch over 5 years ago

#43 - Formatting of the locus files ("Allele name in locus file should be seperated by '_' or '-'")

Issue - State: closed - Opened by bastian-wur almost 6 years ago - 3 comments

#42 - How do you define an unknown allele in the profile file?

Issue - State: closed - Opened by bastian-wur almost 6 years ago - 5 comments

#41 - some samples came back with traceback error or empty result

Issue - State: closed - Opened by florathecat almost 6 years ago - 3 comments

#40 - python error with --coverage

Issue - State: closed - Opened by mikeyweigand about 6 years ago - 13 comments

#39 - Is this python 2 or python 3 ?

Issue - State: closed - Opened by tseemann about 6 years ago - 2 comments

#38 - Proxy issue?

Issue - State: closed - Opened by NRCScientificIT over 6 years ago - 7 comments
Labels: bug, enhancement

#37 - -z parameter says 500 is not an interger

Issue - State: closed - Opened by Walwa over 6 years ago - 2 comments

#36 - Cannot reproduce * with -z parameter

Issue - State: closed - Opened by abrozzi over 6 years ago - 5 comments

#35 - 0 versus empty

Issue - State: closed - Opened by abrozzi over 6 years ago - 12 comments
Labels: bug

#34 - SyntaxError - apostrophes in the license terms

Issue - State: closed - Opened by k-florek about 7 years ago - 1 comment

#33 - Ubuntu 1404 py3

Pull Request - State: closed - Opened by ar0ch over 7 years ago

#32 - No k-mer matches were found for the sample ERR026529....

Issue - State: closed - Opened by hcdenbakker over 7 years ago - 22 comments
Labels: bug

#31 - Better handling of errors while building from pubMLST

Pull Request - State: closed - Opened by ar0ch over 7 years ago

#30 - Improve handling of broken pubMLST definitions

Issue - State: closed - Opened by ar0ch over 7 years ago - 1 comment

#29 - Usage docs are broken

Issue - State: closed - Opened by tseemann over 7 years ago

#28 - Re-license stringMSLT into CC BY-NC-SA 4.0

Pull Request - State: closed - Opened by ar0ch over 7 years ago - 1 comment

#27 - Change of license

Issue - State: closed - Opened by ar0ch over 7 years ago - 6 comments

#26 - Package stringMLST for PyPi

Issue - State: closed - Opened by ar0ch over 7 years ago - 1 comment

#25 - Helper script to download and build PubMLST profiles

Issue - State: closed - Opened by ar0ch over 7 years ago - 2 comments
Labels: bug, enhancement

#24 - Enterococcus faecium issue

Issue - State: closed - Opened by ar0ch over 7 years ago - 1 comment
Labels: bug

#23 - Doc for output format from `stringMLST.py --predict`

Issue - State: closed - Opened by snayfach over 7 years ago - 2 comments
Labels: question

#22 - Add Listeria monocytogenes and E coli MLST databases

Pull Request - State: closed - Opened by andrewjpage almost 8 years ago

#21 - List recommended version of bwa, samtools and bedtools

Issue - State: closed - Opened by Takadonet almost 8 years ago - 1 comment

#20 - Fuzzy docs missing in helpTextSmall section

Issue - State: closed - Opened by Takadonet almost 8 years ago

#19 - [Breaking change] Make options and syntax more obvious

Issue - State: closed - Opened by ar0ch almost 8 years ago
Labels: bug, wontfix

#18 - Optional kmer depth coverage output

Issue - State: closed - Opened by ar0ch almost 8 years ago - 11 comments
Labels: enhancement

#17 - Not compatible with python3

Issue - State: closed - Opened by ar0ch almost 8 years ago - 4 comments
Labels: bug, enhancement

#16 - address issue where if no alleles found at all, should return 0

Pull Request - State: closed - Opened by Takadonet almost 8 years ago

#15 - ensure that column ordering is always consistent.

Pull Request - State: closed - Opened by Takadonet almost 8 years ago - 1 comment

#14 - Alelle order not consistent when have different sample names

Issue - State: closed - Opened by Takadonet almost 8 years ago