Re: [PATCH] Add preseq.

[Mark H Weaver <mhw@netris.org>]

ludo@gnu.org (Ludovic Courtès) writes:

> Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> skribis:
>
>> From e3bd0a861121c441b44d77d30f2aaddb766b49c2 Mon Sep 17 00:00:00 2001
>> From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
>> Date: Tue, 23 Jun 2015 10:54:00 +0200
>> Subject: [PATCH 2/2] gnu: Add preseq.
>>
>> * gnu/packages/bioinformatics.scm (preseq): New variable.
>
> Please add the .patch files to the commit log and to the .am file.
>
> OK with this change.

preseq failed to build on Hydra on x86_64 and mips64el.  As I write
this, the results are not yet in for i686.

  http://hydra.gnu.org:3000/job/gnu/master/preseq-1.0.2.x86_64-linux
  http://hydra.gnu.org:3000/job/gnu/master/preseq-1.0.2.mips64el-linux
  http://hydra.gnu.org:3000/job/gnu/master/preseq-1.0.2.i686-linux

Here's the relevant build log excerpt for x86_64:

--8<---------------cut here---------------start------------->8---
starting phase `use-samtools-headers'
Backtrace:
In ice-9/boot-9.scm:
 157: 15 [catch #t #<catch-closure 27d5580> ...]
In unknown file:
   ?: 14 [apply-smob/1 #<catch-closure 27d5580>]
In ice-9/boot-9.scm:
  63: 13 [call-with-prompt prompt0 ...]
In ice-9/eval.scm:
 432: 12 [eval # #]
In ice-9/boot-9.scm:
2401: 11 [save-module-excursion #<procedure 27f2880 at ice-9/boot-9.scm:4045:3 ()>]
4050: 10 [#<procedure 27f2880 at ice-9/boot-9.scm:4045:3 ()>]
1724: 9 [%start-stack load-stack ...]
1729: 8 [#<procedure 2808c60 ()>]
In unknown file:
   ?: 7 [primitive-load "/gnu/store/6pzf2jhf9syyc02wbgl9mxma4wf2qxj2-preseq-1.0.2-guile-builder"]
In ice-9/eval.scm:
 387: 6 [eval # ()]
In srfi/srfi-1.scm:
 830: 5 [every1 #<procedure 2cb91e0 at /gnu/store/l1019wb5yzbar26cxxqrm88xkbn5gwv1-module-import/guix/build/gnu-build-system.scm:584:9 (expr)> ...]
In /gnu/store/l1019wb5yzbar26cxxqrm88xkbn5gwv1-module-import/guix/build/gnu-build-system.scm:
 588: 4 [#<procedure 2cb91e0 at /gnu/store/l1019wb5yzbar26cxxqrm88xkbn5gwv1-module-import/guix/build/gnu-build-system.scm:584:9 (expr)> #]
In ice-9/eval.scm:
 432: 3 [eval # #]
In srfi/srfi-1.scm:
 619: 2 [for-each #<procedure 2cf4de0 at ice-9/eval.scm:416:20 (a)> #]
In /gnu/store/l1019wb5yzbar26cxxqrm88xkbn5gwv1-module-import/guix/build/utils.scm:
 486: 1 [with-atomic-file-replacement "smithlab_cpp/SAM.cpp" ...]
In unknown file:
   ?: 0 [mkstemp! "smithlab_cpp/SAM.cpp.XXXXXX"]

ERROR: In procedure mkstemp!:
ERROR: In procedure mkstemp!: No such file or directory
builder for `/gnu/store/2ll28ypms57h0k44f4mmclhw9dz3ccvm-preseq-1.0.2.drv' failed with exit code 1
@ build-failed /gnu/store/2ll28ypms57h0k44f4mmclhw9dz3ccvm-preseq-1.0.2.drv - 1 builder for `/gnu/store/2ll28ypms57h0k44f4mmclhw9dz3ccvm-preseq-1.0.2.drv' failed with exit code 1
guix build: error: build failed: build of `/gnu/store/2ll28ypms57h0k44f4mmclhw9dz3ccvm-preseq-1.0.2.drv' failed
--8<---------------cut here---------------end--------------->8---

      Mark