moka-guys automate_demultiplex issues

moka-guys / automate_demultiplex

Scripts for routine analysis of clinical next generation sequencing (NGS) data at Synnovis Genetics

Other

1 stars 2 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Issue with demultiplexing for specific run folder with -r flag

#554 wintun12 opened 1 month ago
0
Move checking age of runfolder earlier to fix bug

#553 RachelDuffin closed 3 months ago
0
Add duty_csv to automated scripts for dev runs

#552 RachelDuffin closed 3 months ago
0
Merge pull request #546 from moka-guys/v45.1.0

#551 RachelDuffin closed 3 months ago
0
Feature/wscleaner incorporation

#550 RachelDuffin closed 3 months ago
0
Feature/wscleaner incorporation

#549 RachelDuffin closed 3 months ago
0
Feature/wscleaner incorporation

#548 RachelDuffin closed 3 months ago
0
Feature/v45.1.0

#547 RachelDuffin closed 4 months ago
0
V45.1.0

#546 RachelDuffin closed 3 months ago
0
Move pipelineemails into separate module - ad_email?

#545 RachelDuffin closed 3 months ago
0
Merge master into develop

#544 RachelDuffin closed 4 months ago
0
Update permissions

#543 RachelDuffin closed 4 months ago
0
Fix test mode setup when on master branch

#542 RachelDuffin closed 4 months ago
0
Fix fastq validation function and samplesheet check flag file behaviour

#541 RachelDuffin closed 5 months ago
0
Upgrade upload agent

#540 RachelDuffin closed 3 months ago
0
v45.0.0 - Major overhaul

#539 RachelDuffin closed 4 months ago
0
Re add coverage back to tso postprocessing commands

#538 RachelDuffin closed 5 months ago
0
Automate upload of development runs

#537 RachelDuffin closed 3 months ago
0
Feature/final tweaks

#536 RachelDuffin closed 5 months ago
0
Feature/exomedepth vcp3

#535 RachelDuffin closed 6 months ago
0
Fix this

#534 RachelDuffin closed 4 months ago
1
Look at usage of sys.exit(1)

#533 RachelDuffin opened 6 months ago
0
Disable syslog in logging

#532 RachelDuffin closed 4 months ago
1
Use tmp_path / tmp_factory_path in testing temp files

#531 RachelDuffin opened 8 months ago
0
Remove all hardcoded paths / secrets as env variables / a configuration service

#530 RachelDuffin opened 8 months ago
1
Remove WES and SNP

#529 RachelDuffin opened 8 months ago
0
Do we want to send samples being processed emails to rest of teams

#528 RachelDuffin opened 9 months ago
1
Switch hard coded paths to cmd line inputs

#527 RachelDuffin opened 9 months ago
0
Add class to logger module that counts number of error and warning log messages

#526 RachelDuffin closed 4 months ago
0
Develop

#525 natashapinto closed 10 months ago
0
Feature/exomedepth vcp3

#524 natashapinto closed 10 months ago
0
Feature/exomedepth vcp3

#523 natashapinto closed 10 months ago
1
Add vcp3 exomedepth changes

#522 RachelDuffin closed 10 months ago
0
Add fastq checks prior to upload

#521 RachelDuffin closed 4 months ago
2
Bring develop in line with master

#520 RachelDuffin closed 10 months ago
0
Add note that when this repo is updated the following repos also require update

#519 RachelDuffin closed 4 months ago
1
Remove any emails from list and instead store in a separate configuration file on the workstation

#518 RachelDuffin opened 11 months ago
0
CHanges required to run on Turing

#517 aledj2 closed 4 months ago
1
Implement an exponential backoff strategy for retries when uploading to DNA Nexus

#516 Graeme-Smith opened 11 months ago
0
This should not be using append mode

#515 RachelDuffin closed 4 months ago
1
v44.8.1

#514 rebeccahaines1 closed 1 year ago
0
add new line to congenica run commands file. Close #512

#513 rebeccahaines1 closed 1 year ago
0
newline in congenica run commands file required

#512 rebeccahaines1 closed 1 year ago
0
Merge v44.8.0 in to master

#511 rebeccahaines1 closed 1 year ago
0
Feature/exomedepth

#510 rebeccahaines1 closed 1 year ago
1
Remove SWIFT

#509 RachelDuffin closed 4 months ago
2
Remove mokaamp

#508 RachelDuffin closed 4 months ago
2
Feature/tsosplitting

#507 rebeccahaines1 closed 1 year ago
0
automate exome depth

#506 aledj2 closed 1 year ago
1
replace Viapath with GSTT (future proof incase KCL can also use these scripts)

#505 aledj2 closed 4 months ago
1