Use native client to read annotations.csv.

[lightning.git] / anno2vcf.go

diff --git a/anno2vcf.go b/anno2vcf.go
index 23c6f21ece59f6c6b8ad7997472248519db12464..85d89eb45896ae00ce50c230a353e60c91f44565 100644 (file)
--- a/anno2vcf.go
+++ b/anno2vcf.go
@@ -10,7 +10,6 @@ import (
        "flag"
        "fmt"
        "io"
-       "io/ioutil"
        "net/http"
        _ "net/http/pprof"
        "os"
@@ -118,10 +117,16 @@ func (cmd *anno2vcf) RunCommand(prog string, args []string, stdin io.Reader, std
                filename := *inputDir + "/" + fi.Name()
                thr.Go(func() error {
                        log.Printf("reading %s", filename)
-                       buf, err := ioutil.ReadFile(filename)
+                       f, err := open(filename)
+                       if err != nil {
+                               return err
+                       }
+                       defer f.Close()
+                       buf, err := io.ReadAll(f)
                        if err != nil {
                                return fmt.Errorf("%s: %s", filename, err)
                        }
+                       f.Close()
                        lines := bytes.Split(buf, []byte{'\n'})
                        calls := map[string][]*call{}
                        for lineIdx, line := range lines {