From 2ff5a7536cb8dd89ac094d7dc18eece927242797 Mon Sep 17 00:00:00 2001
From: Aaron <aaronquinlan@gmail.com>
Date: Mon, 16 Aug 2010 13:33:45 -0400
Subject: [PATCH] Improved the error checking for unionBedGraphs.
---
src/unionBedGraphs/unionBedGraphsMain.cpp | 27 ++++++++++++++++++++---
1 file changed, 24 insertions(+), 3 deletions(-)
diff --git a/src/unionBedGraphs/unionBedGraphsMain.cpp b/src/unionBedGraphs/unionBedGraphsMain.cpp
index 15f80709..916220b9 100644
--- a/src/unionBedGraphs/unionBedGraphsMain.cpp
+++ b/src/unionBedGraphs/unionBedGraphsMain.cpp
@@ -124,17 +124,38 @@ int main(int argc, char* argv[])
else if(PARAMETER_CHECK("-header", 7, parameterLength)) {
printHeader = true;
}
+ else if(PARAMETER_CHECK("-empty", 6, parameterLength)) {
+ printEmptyRegions = true;
+ }
else if(PARAMETER_CHECK("-examples", 9, parameterLength)) {
ShowHelp();
ShowExamples();
exit(1);
}
}
+
+ //Sanity checks
+ if (inputFiles.empty() == true) {
+ cerr << "Error: missing BedGraph file names (-i) to combine." << endl;
+ exit(1);
+ }
+ if (inputFiles.size() == 1) {
+ cerr << "Error: Only a single BedGraph file was specified. Nothing to combine, exiting." << endl;
+ exit(1);
+ }
+ if (printEmptyRegions && (genomeFile.empty() == true)) {
+ cerr << "Error: when using -empty, the genome sizes file (-g) must be specified using '-g FILE'." << endl;
+ exit(1);
+ }
+ if ((haveTitles == true) && (inputFiles.size() != inputTitles.size())) {
+ cerr << "Error: The number of file titles (-names) does not match the number of files (-i)." << endl;
+ exit(1);
+ }
- UnionBedGraphs mbg(cout, inputFiles, inputTitles, printEmptyRegions, genomeFile, noCoverageValue);
+ UnionBedGraphs ubg(cout, inputFiles, inputTitles, printEmptyRegions, genomeFile, noCoverageValue);
if (printHeader)
- mbg.PrintHeader();
- mbg.Union();
+ ubg.PrintHeader();
+ ubg.Union();
}
void ShowHelp(void) {
--
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