Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Version2 #39

Merged
merged 163 commits into from
Jun 30, 2023
Merged

Version2 #39

merged 163 commits into from
Jun 30, 2023

Conversation

seina001
Copy link
Collaborator

No description provided.

seina001 and others added 30 commits June 9, 2022 15:44
@seina001
6/8/22 ChangeLog. Removing interleaved option.
74578f3
@seina001
6/8/22 Testing main function
37aae37
@seina001
6/8/22 Adding fail tests
a95a506
@seina001
6/8/22 Running fail tests
3a83045
@seina001
6/8/22 Test works after removing interleaved option
eb03601
@seina001
Removing BBtools and replacing merge with vsearch merge
970a56c
@seina001
7/5/22 Fixing gzip issue with Vsearch merge output
67d9773
@seina001
Vsearch gz issue: fastq and fastq.gz output added
dd3d2b1
@seina001
Added assertion error to check interleaved files
ca42e0d
@seina001
Removed debugging sections
5c14839
@seina001
Adding check for interleaved files. Removing Debug
2c7595b
@seina001
Replace depreci. --derep_fulllength w fastx_unique
9aef5f6
@seina001
Rm debug 0 seq issue
f0496c5
@seina001
Added Debug for listing 0 length seqs
a0bae58
@seina001
Added check for zero length sequences
d39e1fa
@seina001
Fixing Core function bug + splitting classes
98e82e2
@seina001
Fixing Core function bug
e5c982c
@seina001
converting setup.py to cfg
a3dfe42
@seina001
Setup.cfg conversion
6a0f1c3
@seina001
Delete logfile.txt
8186365
@seina001
update git dependencies
2889540
@seina001
Merge branch 'version2' of https://github.com/USDA-ARS-GBRU/itsxpress …
ec453d4 
…into version2
@seina001
Adding .zst compatibility
b22427a
@seina001
Adding .zst test file
f59508c
@seina001
Adding pytest
b4f5b92
@seina001
added pyzstd to setup
4711ee7
@seina001
Converting to pytest
b5a78f1
@seina001
Converting to pytest from nose
8e28c9e
@seina001
Create python-package-conda.yml
273aea8
@seina001
Merge pull request #32 from USDA-ARS-GBRU/seina001-patch-1
d44c2ab 
Create python-package-conda.yml
seina001 and others added 28 commits May 30, 2023 13:23
@seina001
Update file location
2e10fb3
@seina001
Removing MANIFEST from gitignore
21fe386
@seina001
Adding stagger option for vsearch merge
28768b2
@seina001
Update python-package-conda.yml
810f689
@seina001
Adding dockerfile
9337f1e
@seina001
Upload github action to publish itsxpress image
5fcdfa6
@seina001
Test publish.yml
f48d0b8
@seina001
Update docker image push action
45589d7
@seina001
Update checkout version
fc15c75
@seina001
Update docker versions
dd0bcf3
@seina001
Update publish
6dd0013
@seina001
Change docker publish
22f3c61
@seina001
Add github repo
abe7c01
@seina001
Remove run command
55a33c1
@seina001
Fix temp.fa tempdir bug
7e235b2
@seina001
Fixing tempdir bug
793729e
@seina001
Fix tempdir bug
cc8ed4f
@seina001
Update tempdir bug
1921485
@seina001
Update tempdir bug q2itsxpress
255825f
@seina001
Update tempfile loc for q2 use
9337b87
@seina001
Update tempdir tests script
c0005ec
@seina001
Adding changelog
734baab
@seina001
Update python version
098791e
@seina001
Merge branch 'main' of https://github.com/USDA-ARS-GBRU/itsxpress int…
cae11fe 
…o version2
@seina001
Update readme
5a9377d
@seina001
Update manifest include changelog and Dockerfile
10b9c49
@seina001
Update bioconda versions depend.
c472bab
@seina001
Update docker build for mamba/conflict resolution
789709b
@seina001 seina001 merged commit c505e50 into main Jun 30, 2023
@arivers arivers deleted the version2 branch December 19, 2023 18:05
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers
No reviews
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.
1 participant
@seina001