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author | Pjotr Prins | 2024-08-16 11:37:29 +0200 |
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committer | Pjotr Prins | 2024-08-18 13:49:40 +0200 |
commit | 1a2c0e52ff88c1b12aa1b8984b3aa6c220dc7bf2 (patch) | |
tree | c49ae2a58f89de4b2ba21fb99322482b53c7d74b /topics/data | |
parent | 75314d83401e2def6c3731c30507ceeee1cb61bf (diff) | |
download | gn-gemtext-1a2c0e52ff88c1b12aa1b8984b3aa6c220dc7bf2.tar.gz |
Precompute update
Diffstat (limited to 'topics/data')
-rw-r--r-- | topics/data/precompute/steps.gmi | 15 |
1 files changed, 13 insertions, 2 deletions
diff --git a/topics/data/precompute/steps.gmi b/topics/data/precompute/steps.gmi index a771e2c..d22778a 100644 --- a/topics/data/precompute/steps.gmi +++ b/topics/data/precompute/steps.gmi @@ -13,8 +13,18 @@ We will track precompute steps here. We will have: Trait archives will have steps for * [X] step p1: list-traits-to-compute -* [+] step p2: gemma-lmm9-loco-output: Compute standard GEMMA lmm9 LOCO vector with gemma-wrapper -* [ ] step p3: gemma-to-lmdb: create a clean vector +* [X] step p2: gemma-lmm9-loco-output: Compute standard GEMMA lmm9 LOCO vector with gemma-wrapper +* [X] step p3: gemma-to-lmdb: create a clean vector + +Start precompute + +* [ ] Fetch traits on tux04 +* [ ] Set up runner on tux04 and others +* [ ] Run on Octopus + +Work on published data + +* [ ] Fetch traits The DB itself can be updated from these @@ -22,6 +32,7 @@ The DB itself can be updated from these Later +* [ ] Rqtl2: Compute Rqtl2 vector * [ ] bulklmm: Compute bulklmm vector Interestingly this work coincides with Arun's work on CWL. Rather than trying to write a workflow in bash, we'll use ccwl and accompanying tools to scale up the effort. |