Ecosyste.ms: Issues

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GitHub / takaram/kofam_scan issues and pull requests

#37 - Unknown KO Error

Issue - State: closed - Opened by Kekananen 10 months ago - 1 comment

#36 - Prokaryotic genome, eukaryotic genome, viral genome

Issue - State: open - Opened by qkqk-hub 11 months ago - 1 comment

#35 - wrong number of arguments

Issue - State: open - Opened by WJT0925 12 months ago - 1 comment

#34 - Issue when I run the analysis

Issue - State: open - Opened by queirozhanna about 1 year ago - 2 comments

#33 - Inconsistent output formatting

Issue - State: open - Opened by spitfiredd about 1 year ago

#32 - [Question] What criteria are used to determine significant HMMER hits?

Issue - State: open - Opened by jolespin over 1 year ago - 1 comment

#31 - Conda environment definition

Pull Request - State: open - Opened by cmkobel over 1 year ago

#29 - Core dumped error when running kofamscan

Issue - State: open - Opened by arijitnus almost 2 years ago

#28 - kofam_scan multiple outputs at same time

Issue - State: open - Opened by imonteroo about 2 years ago

#27 - parallel.rb:28:in `write': Broken pipe (Errno::EPIPE)

Issue - State: closed - Opened by jowodo about 2 years ago - 1 comment

#26 - query.fasta

Issue - State: open - Opened by km-2021 over 2 years ago

#25 - prokaryote

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

#24 - Incorrect hmmscan settings cause popen3 to hang rather than an error

Issue - State: open - Opened by lguangyu about 3 years ago - 2 comments

#22 - What is a good e-value cut-off?

Issue - State: open - Opened by mw55309 over 3 years ago - 2 comments

#21 - profile.yml example

Issue - State: open - Opened by thierryjanssens almost 4 years ago

#20 - The set of E-value (-E) did not work.

Issue - State: open - Opened by Jiulong-Zhao almost 4 years ago - 2 comments

#19 - hmmsearch was not run successfully

Issue - State: open - Opened by hahafengxiang almost 4 years ago - 15 comments

#18 - is kofam scan running correctly - tmp directory

Issue - State: open - Opened by soilmicrobiome about 4 years ago

#17 - undefined method `end_with?' for nil:NilClass (NoMethodError)

Issue - State: closed - Opened by lijing28101 about 4 years ago - 3 comments

#16 - Ruby error when running the kofam workflow

Issue - State: open - Opened by ParkvilleData about 4 years ago - 2 comments

#15 - Bump json from 2.1.0 to 2.3.1

Pull Request - State: open - Opened by dependabot[bot] over 4 years ago
Labels: dependencies

#14 - Reorganize code and don't use require_relative in exec_annotation

Issue - State: open - Opened by duboism over 4 years ago - 1 comment

#13 - Bacteria & Archaea hmms

Issue - State: open - Opened by lijierr over 4 years ago

#12 - Parsing output file

Issue - State: closed - Opened by timregan over 4 years ago - 1 comment

#11 - Mmseqs profiles for speed up

Issue - State: open - Opened by SilasK over 4 years ago - 3 comments

#10 - Hit KO that not found in KEGG web?

Issue - State: closed - Opened by lijierr over 4 years ago - 1 comment

#9 - How to compare multi hmm hits from one protein sequence

Issue - State: closed - Opened by lijierr over 4 years ago - 1 comment

#8 - Error: Unknown KO:

Issue - State: closed - Opened by timregan over 4 years ago - 2 comments

#7 - bin/lib/kofam_scan/parallel.rb:28:in `write': Broken pipe (Errno::EPIPE)

Issue - State: closed - Opened by PandengWang over 4 years ago - 4 comments

#6 - How to deal hmm files without a threshold & F-measure info

Issue - State: closed - Opened by lijierr over 4 years ago - 3 comments

#5 - default value of --threshold-scale?

Issue - State: closed - Opened by lijierr over 4 years ago - 1 comment

#4 - default evalue?

Issue - State: open - Opened by soilmicrobiome over 4 years ago - 3 comments

#3 - Which filtering parameters are recommended？

Issue - State: open - Opened by slbai01 almost 5 years ago - 1 comment

#2 - ruby/2.6.0/open3.rb:213:in `spawn': Permission denied (Errno::EACCES)

Issue - State: closed - Opened by Jigyasa3 almost 5 years ago - 2 comments

#1 - suggestion to implement a "tmp directory already exists" warning

Issue - State: open - Opened by AstrobioMike almost 5 years ago - 1 comment