Opened 10 years ago
Last modified 3 years ago
#621 new defect
arb_export_rates crashes
Reported by: | westram | Owned by: | devel |
---|---|---|---|
Priority: | major | Milestone: | arb7.x |
Component: | External_tools | Version: | SVN |
Keywords: | Cc: |
Description
reproduce:
- run arb_ntree with $ARBHOME/UNIT_TESTER/run/TEST_nuc.arb
- run attached macro
console says:
[Action: '(mkdir -p ~/.arb_tmp/$$; cd ~/.arb_tmp/$$ ; arb_export_rates --arb-notify -r "POS_VAR_BY_PARSIMONY" > weights && arb_convert_aln --arb-notify -GenBank /home/ralf/.arb_tmp/tmp/gde20599_0 -phylip infile && ${ARB_XCMD} bash -x -c 'LD_LIBRARY_PATH="${ARB_LIBRARY_PATH:-/usr/arb/lib}";export LD_LIBRARY_PATH; arb_raxml DNA infile weights "" 0 0 0 d "" "" "3" "3" import "PRG=RAxML FILTER=none RATE=POS_VAR_BY_PARSIMONY ALGO=new rapid hill climbing" GTRGAMMA 25 ;arb_wait'; mkdir -p ~/.arb_tmp/$$; cd ~/.arb_tmp/$$ ; cd .. ; rm -rf $$ )&'] [Terminating with signal 11] arbdb.cxx:429: Assertion 'openedDBs == closedDBs' failed ARB_DB_SERVER: a client died abnormally
running arb_export_rates as above segfaults at
(gdb) whe #0 0x00007ffff6947512 in ?? () from /lib/libc.so.6 #1 0x00007ffff692cb5e in fputs () from /lib/libc.so.6 #2 0x00000000004028ca in ARB_main (argc=0, argv=0x7fffffffe2c8) at arb_export_rates.cxx:227 #3 0x0000000000401f70 in main (argc=4, argv=0x7fffffffe2a8) at arb_main.cxx:10
Attachments (1)
Change History (3)
Changed 9 years ago by westram
comment:1 Changed 9 years ago by westram
- Milestone set to arb6.1
comment:2 Changed 3 years ago by westram
- Milestone changed from arb6.1 to arb7.x
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