get_species_taxids does not print all information when invoked with -n
| Affects | Status | Importance | Assigned to | Milestone | |
|---|---|---|---|---|---|
| ncbi-blast+ (Ubuntu) |
New
|
Undecided
|
Unassigned | ||
Bug Description
On ubuntu 20.04.2, ncbi-blast+ 2.9.0-2
It appears that the parsing logic in the script was broken by the ncbi entrez api at some point. When running this script with -n [species], it returns the number of results and no more. Running the script included with the latest version, 2.12.0, functions correctly with its modified parsing.
Best way to resolve this is likely to just put the 2.12.0 script in the package. Attached.
ProblemType: Bug
DistroRelease: Ubuntu 20.04
Package: ncbi-blast+ 2.9.0-2
ProcVersionSign
Uname: Linux 5.8.0-1036-azure x86_64
ApportVersion: 2.20.11-
Architecture: amd64
CasperMD5CheckR
Date: Thu Jul 1 20:15:40 2021
InstallationDate: Installed on 2021-06-29 (1 days ago)
InstallationMedia: Ubuntu-Server 20.04.2 LTS "Focal Fossa" - Release amd64 (20210201.2)
ProcEnviron:
SHELL=/bin/bash
LANG=en_US.UTF-8
TERM=xterm-
XDG_RUNTIME_
PATH=(custom, no user)
SourcePackage: ncbi-blast+
UpgradeStatus: No upgrade log present (probably fresh install)
| Andrew Robbins (ato-1npr3w-n1b) wrote | #1 |
| Ubuntu Foundations Team Bug Bot (crichton) wrote | #2 |
| tags: | added: patch |
| Andrew Robbins (ato-1npr3w-n1b) wrote | #3 |
The attachment "script from 2.12.0" seems to be a patch. If it isn't, please remove the "patch" flag from the attachment, remove the "patch" tag, and if you are a member of the ~ubuntu-reviewers, unsubscribe the team.
[This is an automated message performed by a Launchpad user owned by ~brian-murray, for any issues please contact him.]