samtools build error

[Ryan Schmidt]

On Sep 11, 2012, at 10:47, Peng Yu wrote:

> I got the following error when I install samtools, which I don't quite
> understand what the problem is and how to fix it. Could anybody let me
> know? Thanks!

You should file a bug report in the issue tracker as usual, but before you do:


> :debug:main Skipping completed org.macports.archivefetch (samtools)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.fetch (samtools)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.checksum (samtools)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.extract (samtools)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.patch (samtools)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.configure (samtools)

This indicates that this was not a clean attempt, so the first thing you should do is "sudo port clean samtools" and then try again.