Hi, I'm preparing an NMU with the attached patch to fix this issue.
Thanks, -Steve
diff -u -r openmpi-1.3.2/debian/changelog ../openmpi-1.3.2/debian/changelog
--- openmpi-1.3.2/debian/changelog 2009-06-17 21:56:32.000000000 -0500
+++ ../openmpi-1.3.2/debian/changelog 2009-06-17 22:03:31.000000000 -0500
@@ -1,3 +1,13 @@
+openmpi (1.3.2-2.1) unstable; urgency=low
+
+ * NMU
+ * opal/mca/memory/ptmalloc2/hooks.c: Add check for environment variable
+ OMPI_MCA_disable_memory_allocator. If set, avoid setting up malloc
+ hooks and avoid stat() calls from the malloc init hook.
+ Closes: #531522.
+
+ -- Steve M. Robbins <s...@debian.org> Wed, 17 Jun 2009 22:03:31 -0500
+
openmpi (1.3.2-2) unstable; urgency=low
* Upload to unstable. No changes compared to 1.3.2-1.
Only in ../openmpi-1.3.2/debian: changelog~
Only in ../openmpi-1.3.2/debian/patches: disable-memory-allocator
diff -u -r openmpi-1.3.2/debian/patches/series ../openmpi-1.3.2/debian/patches/series
--- openmpi-1.3.2/debian/patches/series 2009-06-17 21:56:32.000000000 -0500
+++ ../openmpi-1.3.2/debian/patches/series 2009-06-17 21:57:37.000000000 -0500
@@ -1,6 +1,9 @@
# Fixes build issues on Alpha.
alpha_build
+# Fix 531522.
+disable-memory-allocator
+
# Fixes build issues on Sparc.
sparc_build
Only in ../openmpi-1.3.2/debian/patches: series~
diff -u -r openmpi-1.3.2/opal/mca/memory/ptmalloc2/hooks.c ../openmpi-1.3.2/opal/mca/memory/ptmalloc2/hooks.c
--- openmpi-1.3.2/opal/mca/memory/ptmalloc2/hooks.c 2009-04-21 22:51:03.000000000 -0500
+++ ../openmpi-1.3.2/opal/mca/memory/ptmalloc2/hooks.c 2009-06-17 21:55:54.000000000 -0500
@@ -725,6 +725,14 @@
check_result_t lpp = check("OMPI_MCA_mpi_leave_pinned_pipeline");
bool want_rcache = false, found_driver = false;
+ /* Allow user to disable memory allocators. We check this and
+ * exit early because in some environments (e.g. Debian fakeroot
+ * the stat() calls below will cause a memory allocation, which
+ * is deadly. See http://bugs.debian.org/531522
+ */
+ if ( RESULT_YES == check("OMPI_MCA_disable_memory_allocator") )
+ return;
+
/* Look for sentinel files (directories) to see if various network
drivers are loaded (yes, I know, further abstraction
violations...).
Only in ../openmpi-1.3.2/opal/mca/memory/ptmalloc2: hooks.c~
Only in ../openmpi-1.3.2: .pc
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