Bug #847
double free or corruption of psbasemap -A option
| Status: | Closed | Start date: | 2016-01-13 | |
|---|---|---|---|---|
| Priority: | Normal | Due date: | ||
| Assignee: |  Paul | % Done: | 100% | |
| Category: | - | |||
| Target version: | Candidate for next bugfix release | |||
| Affected version: | 5.2-svn | Platform: |
Description
$ gmt psbasemap -R0/10/0/10 -JX10c/5c -A # Geographical coordinates for a (regular) rectangular plot domain outline polygon # Command : psbasemap -R0/10/0/10 -JX10c/5c -A ... ... *** Error in `gmt': double free or corruption (!prev): 0x0000000001b2f3d0 *** ======= Backtrace: ========= /lib64/libc.so.6(+0x7cfe1)[0x7f7a594f3fe1] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_free_segment+0x135)[0x7f7a63739395] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_free_table+0xe3)[0x7f7a6373c213] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_free_dataset_ptr+0x36)[0x7f7a6373d4b6] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMTAPI_destroy_data_ptr+0x6b)[0x7f7a636ee7bb] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_Garbage_Collection+0x23d)[0x7f7a636f363d] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_end_module+0x41)[0x7f7a637baf01] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_psbasemap+0x50d)[0x7f7a63925c5d] /opt/GMT-5.2.1/lib64/libgmt.so.5(GMT_Call_Module+0xb0)[0x7f7a636f9490] gmt(main+0x5e1)[0x4012b1] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7f7a59498b15] gmt[0x40153d] ======= Memory map: ======== 00400000-00402000 r-xp 00000000 fd:03 1097337 /opt/GMT-5.2.1/bin/gmt 00602000-00603000 r--p 00002000 fd:03 1097337 /opt/GMT-5.2.1/bin/gmt 00603000-00604000 rw-p 00003000 fd:03 1097337 /opt/GMT-5.2.1/bin/gmt 01ad3000-01b55000 rw-p 00000000 00:00 0 [heap] 7f7a44000000-7f7a44021000 rw-p 00000000 00:00 0 7f7a44021000-7f7a48000000 ---p 00000000 00:00 0 7f7a4bb27000-7f7a4bc58000 rw-p 00000000 00:00 0 7f7a4bc58000-7f7a4bc5a000 r-xp 00000000 fd:00 33608142 /usr/lib64/libfreebl3.so 7f7a4bc5a000-7f7a4be59000 ---p 00002000 fd:00 33608142 /usr/lib64/libfreebl3.so 7f7a4be59000-7f7a4be5a000 r--p 00001000 fd:00 33608142 /usr/lib64/libfreebl3.so 7f7a4be5a000-7f7a4be5b000 rw-p 00002000 fd:00 33608142 /usr/lib64/libfreebl3.so[1] 5195 abort gmt psbasemap -R0/10/0/10 -JX10c/5c -A
Associated revisions
Did not allocate enough space for psbasemap -A, see issue #847
History
#1
Updated by Remko over 1 year ago
- Status changed from New to Feedback
I could not duplicate this in the current 5.2-svn version (r15434). Hence I assume it has already been fixed some time ago.
Please try with the newer version and report back whether you face the problem still.
#2
Updated by Dongdong over 1 year ago
I don't know how to get the 5.2-svn verison, so I just run
svn checkout svn://gmtserver.soest.hawaii.edu/gmt5/trunk gmt5-dev
and get the 5.3.0_r15446.
The problem still exists:
$ /opt/GMT5-dev/bin/gmt --version 5.3.0_r15446 $ /opt/GMT5-dev/bin/gmt psbasemap -R0/10/0/10 -JX10c/10c -A *** Error in `/opt/GMT5-dev/bin/gmt': double free or corruption (!prev): 0x0000000001598480 *** ======= Backtrace: ========= /lib64/libc.so.6(+0x7cfe1)[0x7f35b0156fe1] /opt/GMT5-dev/lib64/libgmt.so.5(GMT_free_segment+0x129)[0x7f35ba39e229] /opt/GMT5-dev/lib64/libgmt.so.5(GMT_free_table+0x103[1] 25905 abort /opt/GMT5-dev/bin/gmt psbasemap -R0/10/0/10 -JX10c/10c -A
BTW, I am using CentOS 7.2 64bit:
$ lsb_release -a LSB Version: :core-4.1-amd64:core-4.1-noarch:cxx-4.1-amd64:cxx-4.1-noarch:desktop-4.1-amd64:desktop-4.1-noarch:languages-4.1-amd64:languages-4.1-noarch:printing-4.1-amd64:printing-4.1-noarch Distributor ID: CentOS Description: CentOS Linux release 7.2.1511 (Core) Release: 7.2.1511 Codename: Core
and all the GMT dependencies (netcdf, fftw et. al.) are installed using yum.
#3
Updated by Joaquim over 1 year ago
I can reproduce it on Windows too and it's not obvious where it comes from. It says heap is corrupted. I want to look at the Coverity report to see if they have a clue, but we have to wait till they solve the problem with their machine.
#4
Updated by Paul over 1 year ago
Not crashing under OS X of course. I did find a bug (n_rows was off by one) and fixed that in r15447 (trunk). Perhaps you can see if this has any effect on the crash. I cannot see anything else wrong, yet.
#5
Updated by Joaquim over 1 year ago
Nope, it still crashes but now on a different place. It does so at the GMT_free() call in gmt_io.c L6851. Same accusation, heap is corrupted.
for (col = 0; col < segment→n_columns; col++) GMT_free (GMT, segment→coord[col]);
#6
Updated by Paul over 1 year ago
- Status changed from Feedback to Resolved
- Assignee set to Paul
- Target version set to Candidate for next bugfix release
- % Done changed from 0 to 100
Did not allocate enough space for -A. Fixed in r15461.
#7
Updated by Joaquim over 1 year ago
- Status changed from Resolved to Closed