Ecosyste.ms: Issues

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GitHub / kblin/ncbi-acc-download issues and pull requests

#29 - chore(deps): Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows

Pull Request - State: open - Opened by dependabot[bot] 5 months ago
Labels: dependencies

#28 - Automated Retrieval of Neighboring Gene Sequences from NCBI Protein Accessions

Issue - State: closed - Opened by chingciripit 6 months ago - 1 comment
Labels: question

#27 - test: set Content-Type header in request mock

Pull Request - State: closed - Opened by bdrung 6 months ago - 6 comments

#26 - Can I use BioSample identifiers?

Issue - State: open - Opened by Michelle-Pena 10 months ago - 3 comments
Labels: question

#25 - Document best use cases versus alternatives

Issue - State: open - Opened by peterjc over 1 year ago - 1 comment
Labels: help wanted, good first issue

#24 - Can't download gff3 files when running in --recursive mode.

Issue - State: closed - Opened by ewilbanks over 1 year ago - 1 comment
Labels: wontfix

#23 - test suite failure with biopython 1.79

Issue - State: closed - Opened by emollier over 3 years ago - 8 comments
Labels: bug

#22 - Add genomic range and ORF 'correction' option

Pull Request - State: closed - Opened by zdk123 over 3 years ago - 6 comments

#21 - running with `--format fasta` creates an empty fa file

Issue - State: open - Opened by orenmn about 4 years ago - 2 comments
Labels: enhancement

#20 - NCBI Entrez returned error code 429, are ID(s) [...] valid?

Issue - State: open - Opened by orenmn about 4 years ago - 3 comments

#19 - Add genomic range option

Issue - State: closed - Opened by zdk123 over 4 years ago - 2 comments

#18 - Question - Is it possible to download synthetic sequences (taxid 81077) with ngd

Issue - State: closed - Opened by jagos01 over 4 years ago - 2 comments

#17 - Add support for API key input

Pull Request - State: closed - Opened by DarianHole almost 5 years ago - 4 comments

#16 - Accession range support?

Issue - State: open - Opened by peterjc almost 5 years ago - 1 comment
Labels: enhancement, help wanted, good first issue

#15 - syntax error

Issue - State: closed - Opened by germant13 almost 5 years ago - 4 comments

#14 - Retry on failure?

Issue - State: open - Opened by dfornika about 5 years ago - 2 comments

#13 - Issue with recursive download

Issue - State: open - Opened by Anto007 over 5 years ago - 15 comments
Labels: enhancement

#12 - Download error 400

Issue - State: open - Opened by ganiatgithub over 5 years ago - 2 comments
Labels: question

#11 - ncbi_acc_download.errors.DownloadError: Download failed with return code: 400

Issue - State: closed - Opened by shimingtan over 5 years ago - 3 comments
Labels: duplicate

#10 - Unable to run examples

Issue - State: closed - Opened by hrwaik almost 6 years ago - 2 comments
Labels: bug

#9 - Connection broken

Issue - State: open - Opened by shimingt almost 6 years ago - 1 comment

#8 - Entrez search support?

Issue - State: open - Opened by peterjc over 6 years ago - 3 comments
Labels: enhancement

#7 - Print what files you created when using -v mode

Issue - State: open - Opened by tseemann over 6 years ago - 1 comment
Labels: enhancement, help wanted, good first issue

#6 - GFF3 files with sequence included

Issue - State: open - Opened by tseemann over 6 years ago - 1 comment
Labels: enhancement

#5 - The -F gff3 output has no header

Issue - State: closed - Opened by tseemann over 6 years ago - 4 comments
Labels: wontfix

#4 - Download a GFF file [feature request]

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

#3 - Write to a specified file name without implicit extension

Issue - State: closed - Opened by sjackman over 6 years ago - 9 comments

#2 - Should it depend on Biopython

Issue - State: closed - Opened by sjackman over 6 years ago - 3 comments
Labels: bug

#1 - Better user-facing messages on invalid IDs

Issue - State: open - Opened by areejalsheikh over 6 years ago - 2 comments
Labels: enhancement, help wanted, good first issue