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change input type for finish_asm #9

Closed
wants to merge 102 commits into from
Closed

change input type for finish_asm #9

wants to merge 102 commits into from

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Michal-Babins
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scanon and others added 30 commits December 7, 2022 12:13
@scanon
change input type for finish_asm
846ebf0
add make_info_file task
95ae1f9
udpate README
2e334d2
fix missing make_info file direct
2729674
@scanon
Merge pull request #11 from microbiomedata/make_info
d1fb88e 
Werkflow to master for ASM
added release workflow for assembly
38eeedd
switched out uses for run
354e297
removed v from version bump
20ffb00
removed unused variables
1cedae9
added version.txt and upated create_release.yml to source from versio…
7f665b2 
…n.txt
remove unused input_file variable from finish_asm
57f3391
add jgi_meta_wdl submodules
484a137
@kaijli
changed wdl files to version 1.0
c2dc346
update jgi_meta_wdl submodules
ae28597
@kaijli
quick script to choose between long and short reads
468b75b
take one input either to long reads workflow or to short reads workflow
bcdc0e8
@kaijli
working on input dependencies
24e91ca
@kaijli
merged to include interleave
a784baa
@kaijli
having trouble importing jgi long reads
72e12ce
@kaijli
quick json to test choice wdl
47b758a
update jgi_meta_wdl submodules
713cf33
move make_interleaved_reads into shortReads condition, and add contai…
b40bae5 
…ner in interleaved_reads.wdl
@kaijli
working on file localization errors
fd3c145
@kaijli
added imports.zip for cromwell runs
696579e
@kaijli
Merge branch 'longreads' of https://github.com/microbiomedata/metaAss…
24db934 
…embly into longreads
@kaijli
merged import lines
f4e6db8
@kaijli
added test file
4b46283
@kaijli
changed folder paths for nmdc edge server
94da6eb
@kaijli
Merge branch 'longreads' of https://github.com/microbiomedata/metaAss…
1df1c4c 
…embly into longreads
@kaijli
container issue in interleaved fixed
7c7c4f8
vlilanl and others added 29 commits November 15, 2024 11:47
@vlilanl
Update index.rst
b2cf317
@vlilanl
Merge branch 'master' into documentation
dbbfc10
@vlilanl
Revert "Merge branch 'master' into documentation"
fdfb07d 
This reverts commit dbbfc10, reversing
changes made to b2cf317.

Formatting issues
@vlilanl
Update index.rst
7ffb200
@vlilanl
Update README.md
99241fb
@vlilanl
Update index.rst
28540ed
@vlilanl
Update bbtools container for short reads
85c2421
@vlilanl
Update version.txt
19d8b75
@vlilanl
Update workflow diagram
62593b2
@vlilanl
Update version.txt
76e2ad9
@vlilanl
Merge pull request #26 from microbiomedata/documentation
db80b0a 
Update Documentation and Update short reads bbtools container
@vlilanl
Updated Workflow figure
6e35537
@vlilanl
Merge pull request #27 from microbiomedata/documentation
8fd6e2a 
Updated Workflow figure
@kaijli
update test data links
238e47a
@kaijli
add svg
e353ad9
@kaijli
Update index.rst with svg
2f18562
@kaijli
Merge pull request #29 from microbiomedata/28-generate-svg-version-of…
ee23b71 
…-diagram-and-update-indexrst-to-reference-it-instead-of-png-version

28 generate svg version of diagram and update indexrst to reference it instead of png version
@kaijli
remove image scale
74f7f6a
@eecavanna
Enable "Edit on GitHub" link by defining :github_url: in index.rst
31eec93
@eecavanna
Merge pull request #31 from microbiomedata/30-configure-edit-on-githu…
111379b 
…b-link-by-adding-github_url-field-to-indexrst-file

Enable "Edit on GitHub" link by defining `:github_url:` in `index.rst`
@vlilanl
Change String to File
e2effb9
@vlilanl
added in memory allocation for task stage
44d8f9d
@vlilanl
changed String to File
de64be4
@ssarrafan
Update README.md
cf4c796 
Updating link to from old readthedocs to new docs site
@aclum
Merge pull request #33 from microbiomedata/ssarrafan-patch-1
a8a707f 
Update README.md
@vlilanl
Update version.txt
76540c0
@vlilanl
Merge pull request #32 from microbiomedata/tahoma
b34be89 
Updating metaAssembly WDL's to run on Tahoma
@kaijli
Update README.md
ef900a2
@kaijli
Update index.rst
554effc
@kaijli kaijli closed this Mar 5, 2025
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7 participants
@Michal-Babins @kaijli @scanon @vlilanl @aclum @eecavanna @ssarrafan