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SRAtools download seems to insert paired-end suffix into workdir path

bugSomething isn't workingSomething isn't working

Status: Open.

#221 In nf-core/fetchngs;

· dmalzl opened on Oct 16, 2023

optimized resources

Status: Draft (not ready).

nf-core/fetchngsnumber 269

#269 In nf-core/fetchngs;

· edmundmiller opened on Feb 6, 2024

Proposal: Rewrite SRA_RUNINFO_TO_FTP as native process

Status: Open (in progress).

nf-core/fetchngsnumber 337

#337 In nf-core/fetchngs;

· bentsherman opened on Feb 21, 2025

Update to Nextflow 25.04

Status: Open (in progress).

nf-core/fetchngsnumber 347

#347 In nf-core/fetchngs;

· bentsherman opened on May 14, 2025

Proposal: nf-utils

Status: Open (in progress).

nf-core/fetchngsnumber 348

#348 In nf-core/fetchngs;

· edmundmiller opened on May 18, 2025

Add compatibility with sarek samplesheet

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#196 In nf-core/fetchngs;

· FriederikeHanssen opened on Sep 21, 2023

Use nf-test for input validation

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#254 In nf-core/fetchngs;

· drpatelh opened on Jan 18, 2024

check out extensions for input files

bugSomething isn't workingSomething isn't working

Status: Open.

#256 In nf-core/fetchngs;

· maxulysse opened on Jan 25, 2024

1.11.0 works while 1.12.0 fails for apptainer+wget ( wget: unable to resolve host address 'ftp.sra.ebi.ac.uk' )

bugSomething isn't workingSomething isn't working

Status: Open.

#328 In nf-core/fetchngs;

· lindenb opened on Dec 9, 2024

Incorrect MD5 checksums being used for some files

bugSomething isn't workingSomething isn't working

Status: Open.

#331 In nf-core/fetchngs;

· tanaes opened on Jan 9, 2025

fetchngs test fails

Status: Open.

#336 In nf-core/fetchngs;

· mjfi2sb3 opened on Feb 6, 2025

Partition error on SLURM only with fetchngs -

bugSomething isn't workingSomething isn't working

Status: Open.

#343 In nf-core/fetchngs;

· DollyCM opened on Apr 9, 2025

ERROR ~ Error executing process > 'NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (1)'

bugSomething isn't workingSomething isn't working

Status: Open.

#346 In nf-core/fetchngs;

· Luke-ebbis opened on May 12, 2025

Check if running offline

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#18 In nf-core/fetchngs;

· drpatelh opened on Jun 29, 2021

wget host address error

bugSomething isn't workingSomething isn't working

Status: Open.

#291 In nf-core/fetchngs;

· mniederhuber opened on Feb 23, 2024

SRA file links deprecated

bugSomething isn't workingSomething isn't working

Status: Open.

#301 In nf-core/fetchngs;

· tiendu opened on Mar 7, 2024

Update some modeles for TES compliance

bugSomething isn't workingSomething isn't working

Status: Open.

#318 In nf-core/fetchngs;

· vsmalladi opened on Sep 13, 2024

fasterq-dump => disk: local-ssd

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#332 In nf-core/fetchngs;

· nick-youngblut opened on Jan 11, 2025

Cloud tests switched to using a matrix strategy

Status: Draft (not ready).

nf-core/fetchngsnumber 289

#289 In nf-core/fetchngs;

· adamrtalbot opened on Feb 22, 2024

Add ampliseq samplesheet creation dependent on #790 in ampliseq

Status: Draft (not ready).

nf-core/fetchngsnumber 324

#324 In nf-core/fetchngs;

· jenmuell opened on Oct 29, 2024

Add wget wait time for retries

Status: Open (in progress).

nf-core/fetchngsnumber 325

#325 In nf-core/fetchngs;

· maxibor opened on Nov 29, 2024

Patch wget failure to download

Status: Open (in progress).

nf-core/fetchngsnumber 338

#338 In nf-core/fetchngs;

· ukleiner opened on Feb 26, 2025