throw exception when file not existing

Zilong-Li · Aug 6, 2024 · 369c4b2 · 369c4b2
1 parent ae06697
commit 369c4b2
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Showing 2 changed files with 5 additions and 1 deletion.
diff --git a/tools/vcf2beagle.cpp b/tools/vcf2beagle.cpp
@@ -50,7 +50,7 @@ int main(int argc, char * argv[])
     vector<double> out;
     while(vcf.getNextVariant(var))
     {
-        if(!var.isSNP()) continue;
+        // if(!var.isSNP()) continue;
         if(tag == "PL")
         {
             var.getFORMAT("PL", pl); // try get PL values

diff --git a/vcfpp.h b/vcfpp.h
@@ -1519,6 +1519,7 @@ class BcfReader
     {
         fname = file;
         fp = std::shared_ptr<htsFile>(hts_open(file.c_str(), "r"), htsFile_close());
+        if(!fp) throw std::invalid_argument("I/O error: input file is invalid");
         header.hdr = bcf_hdr_read(fp.get());
         nsamples = bcf_hdr_nsamples(header.hdr);
         SamplesName = header.getSamples();
@@ -1710,6 +1711,7 @@ class BcfWriter
     {
         auto mode = getMode(fname, "w");
         fp = std::shared_ptr<htsFile>(hts_open(fname.c_str(), mode.c_str()), htsFile_close());
+        if(!fp) throw std::invalid_argument("I/O error: input file is invalid");
     }
 
     /**
@@ -1724,6 +1726,7 @@ class BcfWriter
     void open(const std::string & fname, const std::string & mode)
     {
         fp = std::shared_ptr<htsFile>(hts_open(fname.c_str(), mode.c_str()), htsFile_close());
+        if(!fp) throw std::invalid_argument("I/O error: input file is invalid");
     }
 
     /// close the BcfWriter object.
@@ -1751,6 +1754,7 @@ class BcfWriter
     void copyHeader(const std::string & vcffile)
     {
         htsFile * fp2 = hts_open(vcffile.c_str(), "r");
+        if(!fp2) throw std::invalid_argument("I/O error: input file is invalid");
         header.hdr = bcf_hdr_read(fp2);
         hts_close(fp2);
         initalHeader(header);