diff --git a/cmd/obitools/obiconvert/main.go b/cmd/obitools/obiconvert/main.go index 8dab176..f0e0e70 100644 --- a/cmd/obitools/obiconvert/main.go +++ b/cmd/obitools/obiconvert/main.go @@ -9,9 +9,9 @@ import ( ) func main() { - option_parser := obioptions.GenerateOptionParser(obiconvert.OptionSet) + optionParser := obioptions.GenerateOptionParser(obiconvert.OptionSet) - _, args, _ := option_parser(os.Args) + _, args, _ := optionParser(os.Args) fs, _ := obiconvert.ReadBioSequences(args...) obiconvert.WriteBioSequences(fs) diff --git a/cmd/obitools/obicount/main.go b/cmd/obitools/obicount/main.go index 43876b5..f945200 100644 --- a/cmd/obitools/obicount/main.go +++ b/cmd/obitools/obicount/main.go @@ -28,12 +28,12 @@ func main() { trace.Start(ftrace) defer trace.Stop() - option_parser := obioptions.GenerateOptionParser( + optionParser := obioptions.GenerateOptionParser( obiconvert.InputOptionSet, obicount.OptionSet, ) - _, args, _ := option_parser(os.Args) + _, args, _ := optionParser(os.Args) fs, _ := obiconvert.ReadBioSequences(args...) nread := 0 diff --git a/cmd/obitools/obifind/main.go b/cmd/obitools/obifind/main.go index 87ff582..5ff44ff 100644 --- a/cmd/obitools/obifind/main.go +++ b/cmd/obitools/obifind/main.go @@ -9,9 +9,9 @@ import ( ) func main() { - option_parser := obioptions.GenerateOptionParser(obifind.OptionSet) + optionParser := obioptions.GenerateOptionParser(obifind.OptionSet) - _, args, _ := option_parser(os.Args) + _, args, _ := optionParser(os.Args) //prof, _ := os.Create("obifind.prof") //pprof.StartCPUProfile(prof) diff --git a/cmd/obitools/obipairing/main.go b/cmd/obitools/obipairing/main.go index 0644c05..0cbbeba 100644 --- a/cmd/obitools/obipairing/main.go +++ b/cmd/obitools/obipairing/main.go @@ -28,9 +28,9 @@ func main() { // trace.Start(ftrace) // defer trace.Stop() - option_parser := obioptions.GenerateOptionParser(obipairing.OptionSet) + optionParser := obioptions.GenerateOptionParser(obipairing.OptionSet) - option_parser(os.Args) + optionParser(os.Args) pairs, _ := obipairing.IBatchPairedSequence() paired := obipairing.IAssemblePESequencesBatch(pairs, 2, 50, 20, true) written, _ := obiformats.WriteFastqBatchToStdout(paired) diff --git a/cmd/obitools/obipcr/main.go b/cmd/obitools/obipcr/main.go index 29f3c75..a070e2e 100644 --- a/cmd/obitools/obipcr/main.go +++ b/cmd/obitools/obipcr/main.go @@ -24,9 +24,9 @@ func main() { // trace.Start(ftrace) // defer trace.Stop() - option_parser := obioptions.GenerateOptionParser(obipcr.OptionSet) + optionParser := obioptions.GenerateOptionParser(obipcr.OptionSet) - _, args, _ := option_parser(os.Args) + _, args, _ := optionParser(os.Args) sequences, _ := obiconvert.ReadBioSequencesBatch(args...) amplicons, _ := obipcr.PCR(sequences)