Maria Lara

Dear all, I'm having some problems with the --targets argument and I don't know how to solve it: ``` Error: signal 11: freebayes(+0xbd51b)[0x7f7c18fe551b] /lib64/libc.so.6(+0x35670)[0x7f7c182a6670] /mnt/data-netapp/users/mlara/envs/snippy/bin/../lib/libstdc++.so.6(+0xd7ce7)[0x7f7c18a0bce7] /mnt/data-netapp/users/mlara/envs/snippy/bin/../lib/libstdc++.so.6(_ZNKSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEE17find_first_not_ofEPKcmm+0x33)[0x7f7c18a3b913] freebayes(+0x7f1ab)[0x7f7c18fa71ab] freebayes(+0x1cede)[0x7f7c18f44ede] freebayes(+0x5f706)[0x7f7c18f87706] freebayes(+0x69103)[0x7f7c18f91103]...

Missing mutations from WHO Catalogue

10

Hi! As far as I am concerned, tb-profiler database contains all the mutations that confer drug resistance listed in the WHO catalogue. However, the following mutation is not found in...

Minimizer counts column in bracken report

1

Hi! I would like to know how to include kraken2's report column "Number of distinct minimizers in read data associated with this taxon" in Bracken's report file so as to...

SNPs alignment as input

2

I have been using a core genome alignment as input of grapeTree stand-alone version, but it crashes when the alignment contains too many sequences because of a memory issue (I...

Hi, I installed CRISPRCasTyper (v1.8.0) through conda but it can not execute makeblastdb, this error appears: ``` [2024-07-05 11:00:29] INFO: BLASTing for CRISPR near cas operons makeblastdb: error while loading...

Index error if file is empty

1

Hi! I am a big fan of parsnp. I was using v1.7.4 so I decided to update parsnp to v2.0.5. However, I get this error: ``` File "miniconda3/envs/parsnp2/bin/parsnp", line 969,...

Node name is trimmed in the tree

1

Hi! When an auspice tree view is zoomed, the tip labels are trimmed because of the x-axis range For example:  Tip labels are expected to be...

Hi! Congratulations for the amazing tool. I am trying rgi v6.0.3 (installed through conda) and it works fine. However, I noticed that the returncode of rgi main execution is always...