Added print warnings when getGRcoverageFromBw() fails to download cov…

…erage data.
jmw86069 · Nov 2, 2024 · a1de394 · a1de394
1 parent e8816c7
commit a1de394
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Showing 4 changed files with 10 additions and 2 deletions.
diff --git a/NEWS.md b/NEWS.md
@@ -3,7 +3,12 @@
 ## changes
 
 * Moved functions into separate files for better code review.
+* `getGRcoverageFromBw()`
 
+   * When it fails to download a bigwig file, it prints the error
+   which is not always informative. Now it also prints the warning,
+   which can tell whether the URL was available, or another error
+   was caused by this step.
 
 # splicejam 0.0.81.900
 

diff --git a/R/jambio-gr-coverage.R b/R/jambio-gr-coverage.R
@@ -141,7 +141,10 @@ getGRcoverageFromBw <- function
             bwUrl,
             "', returning NULL.");
          jamba::printDebug(warnText);
+         # print the error
          print(e);
+         # print any associated warnings
+         print(warnings());
          warning(warnText);
          NULL;
       });

diff --git a/man/combineGRcoverage.Rd b/man/combineGRcoverage.Rd
diff --git a/man/getGRcoverageFromBw.Rd b/man/getGRcoverageFromBw.Rd