removing cpsr dependency

sigven · May 23, 2024 · ce78855 · ce78855
1 parent 2745c8c
commit ce78855
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Showing 8 changed files with 429 additions and 427 deletions.
diff --git a/pcgrr/DESCRIPTION b/pcgrr/DESCRIPTION
@@ -25,7 +25,6 @@ Description: Functions, tools and utilities for the generation of clinical
 License: MIT + file LICENSE
 biocViews:
 Remotes:
-    sigven/cpsr,
     caravagnalab/CNAqc
 Imports:
     openxlsx2,
@@ -35,7 +34,6 @@ Imports:
     assertthat,
     Biostrings,
     CNAqc,
-    cpsr,
     DT,
     dplyr,
     flexdashboard,

diff --git a/pcgrr/NAMESPACE b/pcgrr/NAMESPACE
@@ -76,6 +76,7 @@ export(log4r_warn)
 export(log_var_eitem_stats)
 export(make_cnaqc_object)
 export(max_af_gnomad)
+export(mkdir)
 export(msi_indel_fraction_plot)
 export(msi_indel_load_plot)
 export(order_variants)
@@ -92,7 +93,6 @@ export(tier_af_distribution)
 export(update_report)
 export(variant_stats_report)
 export(write_processed_vcf)
-export(write_report)
 export(write_report_excel)
 export(write_report_quarto_html)
 export(write_report_tsv)