gem-pasteur Integron_Finder issues

gem-pasteur / Integron_Finder

Bioinformatics tool to find integrons in bacterial genomes

GNU General Public License v3.0

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issues

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[BUG] Error in find_attc_max function

#117 Ales-ibt closed 5 months ago
5
How to classify Integrons？

#116 xdli009 closed 7 months ago
1
[FEAT] specify output folder or path

#115 susheelbhanu closed 8 months ago
1
[BUG] Wrong coordinates in results

#114 fmalmeida closed 5 months ago
13
[FEAT] Use the option --prot-file independently of the option --annot-parser

#113 LCoffion opened 11 months ago
0
[FEAT] improve IF to work with gembase 2

#112 bneron closed 9 months ago
0
[FEAT] Remove/Relax Matplotlib version requirement

#111 acarafat opened 1 year ago
5
[HELP] In silico IntI1 qPCR assay don't match results IntegronFinder

#110 LauraVP1994 closed 1 year ago
10
[HELP] Different results in hits between multi-gbk and merged gbk on same sample?

#109 Svnipni closed 1 year ago
2
AttributeError: module 'Bio.Seq' has no attribute 'IUPAC'

#108 EllBaum closed 1 year ago
2
[BUG] underlay of /etc/localtime required more than 50 (87) bind mounts

#107 yegonzalezflores closed 1 year ago
4
How to use --func-annot

#106 aslangabriel closed 2 years ago
1
[HELP] How can I get the sequence of whole integron?

#105 Galib009 closed 1 year ago
3
[BUG] IF crashes with --gbk option in a specific caase

#104 eloilit closed 5 months ago
3
[BUG] IF crashes on a multiple contigs file

#103 eloilit closed 1 year ago
1
[HELP] Question: are gene cassettes of a integron all on the same strand?

#102 jiarong closed 2 years ago
4
[HELP] Question: are the integrase (IntI) always on the opposite strand of gene cassettes?

#101 jiarong closed 2 years ago
3
[FEAT] genbank or gff as input

#100 alexweisberg opened 2 years ago
0
[BUG] IntegronFinder fails when there is a "space" in the path

#99 eloilit closed 2 years ago
1
:pencil2: Eloilit patch issue 97 on CPU documentation

#98 eloilit closed 2 years ago
0
[FEAT] Add documentation about CPU usage

#97 eloilit closed 2 years ago
0
install Integron_Finder through conda

#96 danielarothschild closed 2 years ago
0
Complete documentation for ARG

#95 jeanrjc closed 2 years ago
1
IntegronFinder does not pass unitary test "test_main_outdir_exists" (test_merge.TestMain)

#94 eloilit closed 2 years ago
0
Issue with colorlog logging

#93 alexweisberg closed 3 years ago
1
ValueError: attempt to get argmin of an empty sequence

#92 danyu-uofa closed 3 years ago
4
IF give different results depending installation

#91 bneron closed 3 years ago
2
Integron_Finder bogs down server's I/O when ran on metagenomes with ~million contigs

#90 JuntaoZhong opened 3 years ago
3
update hmmsearch command line and profile

#89 bneron closed 3 years ago
0
IntegronFinder should not run twice over the the edge of the replicon

#88 jeanrjc closed 2 years ago
0
Help me understanding the output of IF with a multi-fasta file

#87 bramvandijk88 closed 3 years ago
2
Fatal error: Exit code 127 ()

#86 IustinBilavschi closed 3 years ago
1
End location (191284) must be greater than or equal to start location (271412)

#85 erichy91 closed 3 years ago
6
Keep attC sites even if the evalue change with local_max

#84 jeanrjc closed 3 years ago
0
program not work for Staphylococcus aureus

#83 wmbio closed 3 years ago
1
Problem installing integron_finder via bioconda

#82 evolarjun closed 3 years ago
5
some major and common problems

#81 hongyuan-zheng closed 3 years ago
2
error on calling --gembases option

#80 cachapuz2001 closed 3 years ago
1
Error related to prodigal: RuntimeError("{0} failed returncode = {1}".format(prodigal_cmd, returncode))

#79 sasonbol closed 3 years ago
16
AttributeError: module 'Bio.Seq' has no attribute 'IUPAC'

#78 deoliveiralab closed 3 years ago
4
conda install causes pandas.io.common ImportError

#77 nebfield closed 3 years ago
2
Error running Singularity

#76 ramadatta closed 3 years ago
4
Integron classes 1,2,3

#75 koopkaup closed 4 years ago
1
Installing from pip not working

#74 leaemiliepradier closed 5 years ago
3
go_left = (full_element[full_element.type_elt == "attC"].pos_beg.values[0] - df_max.pos_end.values[0]: index 0 is out of bounds for axis 0 with size 0

#73 vbrover closed 3 years ago
6
"integron_finder --local_max --func_annot mysequences.fst" should be "integron_finder --local-max --func-annot mysequences.fst"

#72 vbrover closed 5 years ago
0
IndexError attc.py

#71 jfourquet2 closed 3 years ago
4
Topology issues

#70 jeanrjc closed 3 years ago
2
problem with overlapping/near identical attC sites

#69 jeanrjc closed 2 years ago
6
in summary output, add the size of contig

#68 jeanrjc closed 3 years ago
0