Suppress messages for theta=Inf genes

satijalab · Oct 18, 2023 · 79de275 · 79de275
1 parent 9cf21c4
commit 79de275
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: sctransform
 Type: Package
 Title: Variance Stabilizing Transformations for Single Cell UMI Data
-Version: 0.4.0.9002
+Version: 0.4.0.9003
 Date: 2023-10-18
 Authors@R: c(
   person(given = "Christoph", family = "Hafemeister", email = "christoph.hafemeister@nyu.edu", role = "aut", comment = c(ORCID = "0000-0001-6365-8254")),

diff --git a/R/vst.R b/R/vst.R
@@ -935,7 +935,7 @@ reg_model_pars <- function(model_pars, genes_log_gmean_step1, genes_log_gmean, c
   all_genes <- rownames(model_pars_fit)
   # browser()
   if (exclude_poisson){
-    if (verbosity > 0) {
+    if (verbosity > 1) {
       message(paste('Replacing fit params for', length(all_poisson_genes),  'poisson genes by theta=Inf'))
     }
     for (col in intersect(colnames(x = model_pars_fit), colnames(x = vst_out_offset)) ){