add generate_runningfisher_report to params

R-ODAF · Aug 29, 2024 · 2230df0 · 2230df0
1 parent 0b5f733
commit 2230df0
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diff --git a/Rmd/DESeq2_report_new.Rmd b/Rmd/DESeq2_report_new.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/Rmd/data_explorer_report.Rmd b/Rmd/data_explorer_report.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/Rmd/go_pathway_report.Rmd b/Rmd/go_pathway_report.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/Rmd/stats_report.Rmd b/Rmd/stats_report.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/Rmd/tgx-hdaci.Rmd b/Rmd/tgx-hdaci.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/Rmd/tgx_ddi.Rmd b/Rmd/tgx_ddi.Rmd
@@ -58,6 +58,7 @@ params:
   generate_go_pathway_report: TRUE
   generate_tgxddi_report: TRUE
   generate_tgxhdaci_report: TRUE
+  generate_runningfisher_report: TRUE
   output_digits: 5
   parallel: FALSE
   species_data: null

diff --git a/inputs/config/config.default.yaml b/inputs/config/config.default.yaml
@@ -91,5 +91,6 @@ DESeq2:
   generate_go_pathway_report: FALSE
   generate_tgxddi_report: FALSE
   generate_tgxhdaci_report: FALSE
+  generate_runningfisher_report: TRUE
   output_digits: 5 # control rounding of DEG output. Primarily used to suppress RNG variability so our tests don't fail :)
   parallel: FALSE