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-rwxr-xr-xscripts/precompute/run-gemma.scm4
1 files changed, 2 insertions, 2 deletions
diff --git a/scripts/precompute/run-gemma.scm b/scripts/precompute/run-gemma.scm
index 36edf8b..48222b4 100755
--- a/scripts/precompute/run-gemma.scm
+++ b/scripts/precompute/run-gemma.scm
@@ -9,7 +9,7 @@ Run from base dir with
and with some extra paths (for gemma)
-. .guix-shell ruby --expose=/home/wrk/iwrk/opensource/code/genetics/gemma-wrapper/=/gemma-wrapper --expose=/home/wrk/iwrk/opensource/code/genetics/gemma/=/gemma -- env TMPDIR=tmp guile -L . -s ./scripts/precompute/run-gemma.scm
+guix shell -C -F xz tar time parallel gemma coreutils-minimal guile guile-dbi guile-json ruby --expose=/home/wrk/iwrk/opensource/code/genetics/gemma-wrapper/=/gemma-wrapper --expose=/home/wrk/iwrk/opensource/code/genetics/gemma/=/gemma -- env TMPDIR=tmp guile -L . -e main -s ./scripts/precompute/run-gemma.scm test
!#
@@ -49,5 +49,5 @@ Usage: list-traits-to-compute [options...]
]
(display dataset)
(write-pheno-file "pheno.txt" traits)
- ; (run-gemma "BXD" data-id probeset-id probesetfreeze-id name trait-name traits)))
+ (invoke-gemma-wrapper-loco dataset-name trait-name "pheno.txt")
))))))