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JAL-2629 add checks for executing hmmer commands as .exe
[jalview.git]
/
src
/
jalview
/
hmmer
/
HMMBuildThread.java
diff --git
a/src/jalview/hmmer/HMMBuildThread.java
b/src/jalview/hmmer/HMMBuildThread.java
index
5d55f84
..
ed074a8
100644
(file)
--- a/
src/jalview/hmmer/HMMBuildThread.java
+++ b/
src/jalview/hmmer/HMMBuildThread.java
@@
-149,10
+149,16
@@
public class HMMBuildThread implements Runnable
private boolean runCommand() throws IOException, InterruptedException
{
private boolean runCommand() throws IOException, InterruptedException
{
- File file = new File(cmds.HMMERFOLDER + "/binaries/hmmbuild");
+ File file = new File(cmds.HMMERFOLDER + "/hmmbuild");
if (!file.canExecute())
{
if (!file.canExecute())
{
- return false;
+ file = new File(cmds.HMMERFOLDER + "/hmmbuild.exe");
+ {
+ if (!file.canExecute())
+ {
+ return false;
+ }
+ }
}
String command = cmds.HMMERFOLDER + cmds.HMMBUILD + cmds.NAME;
if (forGroup)
}
String command = cmds.HMMERFOLDER + cmds.HMMBUILD + cmds.NAME;
if (forGroup)