Fix doc

richelbilderbeek · Dec 7, 2021 · 1c8a214 · 1c8a214
1 parent 698dadc
commit 1c8a214
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/run_gcae.py b/run_gcae.py
@@ -2,10 +2,10 @@
 
 Usage:
   run_gcae.py train --datadir=<name> --data=<name> --model_id=<name> --train_opts_id=<name> --data_opts_id=<name> --save_interval=<num> --epochs=<num> [--resume_from=<num> --trainedmodeldir=<name> ] [--pheno_model_id=<name>]
-  run_gcae.py project --datadir=<name>   [ --data=<name> --model_id=<name>  --train_opts_id=<name> --data_opts_id=<name> --superpops=<name> --epoch=<num> --trainedmodeldir=<name>   --pdata=<name> --trainedmodelname=<name>]
-  run_gcae.py plot --datadir=<name> [  --data=<name>  --model_id=<name> --train_opts_id=<name> --data_opts_id=<name>  --superpops=<name> --epoch=<num> --trainedmodeldir=<name>  --pdata=<name> --trainedmodelname=<name>]
+  run_gcae.py project --datadir=<name>   [ --data=<name> --model_id=<name>  --train_opts_id=<name> --data_opts_id=<name> --superpops=<name> --epoch=<num> --trainedmodeldir=<name>   --pdata=<name> --trainedmodelname=<name>] [--pheno_model_id=<name>]
+  run_gcae.py plot --datadir=<name> [  --data=<name>  --model_id=<name> --train_opts_id=<name> --data_opts_id=<name>  --superpops=<name> --epoch=<num> --trainedmodeldir=<name>  --pdata=<name> --trainedmodelname=<name>] [--pheno_model_id=<name>]
   run_gcae.py animate --datadir=<name>   [ --data=<name>   --model_id=<name> --train_opts_id=<name> --data_opts_id=<name>  --superpops=<name> --epoch=<num> --trainedmodeldir=<name> --pdata=<name> --trainedmodelname=<name>]
-  run_gcae.py evaluate --datadir=<name> --metrics=<name>  [  --data=<name>  --model_id=<name> --train_opts_id=<name> --data_opts_id=<name>  --superpops=<name> --epoch=<num> --trainedmodeldir=<name>  --pdata=<name> --trainedmodelname=<name>]
+  run_gcae.py evaluate --datadir=<name> --metrics=<name>  [  --data=<name>  --model_id=<name> --train_opts_id=<name> --data_opts_id=<name>  --superpops=<name> --epoch=<num> --trainedmodeldir=<name>  --pdata=<name> --trainedmodelname=<name>] [--pheno_model_id=<name>]
 
 Options:
   -h --help             show this screen
@@ -23,7 +23,7 @@
   --epoch<num>          epoch at which to project/plot/evaluate data. if not specified, all saved epochs will be used
   --superpops<name>     path+filename of file mapping populations to superpopulations. used to color populations of the same superpopulation in similar colors in plotting. if not absolute path: assumed relative to GenoCAE/ directory.
   --metrics=<name>      the metric(s) to evaluate, e.g. hull_error of f1 score. can pass a list with multiple metrics, e.g. "hull_error,f1_score"
-  --pheno_model_id=<name> phenotype model id, e.g. 'p1', corresponding to a file models/<pheno_model_id>.json
+  --pheno_model_id=<name> phenotype model id, e.g. p1, corresponding to a file models/pheno_model_id.json
 
 """