Seg fault when running script
fractaledmind opened this issue · comments
I was running this script on my machine to test whether indexing a separate db via an ATTACHment would block writing to the main db on a single connection:
require "extralite"
require "benchmark"
db1 = Extralite::Database.new "db1.sqlite3"
db1.execute "pragma journal_mode = wal;"
db1.transaction do
db1.execute "create table t1 ( a integer primary key, b text );"
1_000_000.times do |i|
db1.execute "insert into t1 ( b ) values ( ? );", "#{i}-#{rand(1000)}"
end
end
db2 = Extralite::Database.new "db2.sqlite3"
db2.execute "pragma journal_mode = wal;"
db2.execute "attach 'db1.sqlite3' as db1;"
db2.execute "create table t2 ( a integer primary key, b text );"
overall = Benchmark.realtime do
t1 = Thread.new do
time1 = Benchmark.realtime do
db2.execute "create unique index db1.t1_b_unique on t1 (b);"
end
p({ indexing: time1 })
end
t2 = Thread.new do
time2 = Benchmark.realtime do
1_000_000.times do |i|
db2.execute "insert into main.t2 ( b ) values ( ? );", "#{i}-#{rand(1000)}"
end
end
p({ inserting: time2 })
end
t1.join
t2.join
end
p({ overall: overall })
db1.close
db2.close
File.delete( "db1.sqlite3" )
File.delete( "db1.sqlite3-wal" )
File.delete( "db1.sqlite3-shm" )
File.delete( "db2.sqlite3" )
File.delete( "db2.sqlite3-wal" )
File.delete( "db2.sqlite3-shm" )However, this script regularly segfaults:
fractaled@Stephens-MBP sqlite3-ruby % ruby test.rb
test.rb:23: [BUG] Segmentation fault at 0x0000000000000000
ruby 3.2.1 (2023-02-08 revision 31819e82c8) [arm64-darwin21]
-- Crash Report log information --------------------------------------------
See Crash Report log file in one of the following locations:
* ~/Library/Logs/DiagnosticReports
* /Library/Logs/DiagnosticReports
for more details.
Don't forget to include the above Crash Report log file in bug reports.
-- Control frame information -----------------------------------------------
c:0005 p:---- s:0020 e:000019 CFUNC :execute
c:0004 p:0007 s:0015 e:000014 BLOCK test.rb:23
c:0003 p:0010 s:0012 e:000011 METHOD /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/benchmark.rb:311
c:0002 p:0005 s:0007 e:000006 BLOCK test.rb:22 [FINISH]
c:0001 p:---- s:0003 e:000002 DUMMY [FINISH]
-- Ruby level backtrace information ----------------------------------------
test.rb:22:in `block (2 levels) in <main>'
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/benchmark.rb:311:in `realtime'
test.rb:23:in `block (3 levels) in <main>'
test.rb:23:in `execute'
-- Machine register context ------------------------------------------------
x0: 0x00000001381e6da0 x1: 0x0000000000001206 x2: 0x0000000000000004
x3: 0x0000600003954000 x4: 0x00000001381e72d8 x5: 0x0000000000000039
x6: 0x0000000000000040 x7: 0x00000000000006d0 x18: 0x0000000000000000
x19: 0x00000001381e6da0 x20: 0x0000000000000000 x21: 0x00000001381e6da0
x22: 0x00000000004c4b53 x23: 0x0000000135008330 x24: 0x00000001381ef2e0
x25: 0x0000000130f042e0 x26: 0x0000000130f04668 x27: 0x0000000130f04470
x28: 0xffffffffffffffff lr: 0x64158001b1b26670 fp: 0x000000016d5e1fa0
sp: 0x000000016d5e1f70
-- C level backtrace information -------------------------------------------
zsh: trace trap ruby test.rb
Notably (to me at least), when I use smaller numbers for the N.times blocks, I don't get a segfault...
Even just reducing the N in the t2 thread block by one order of magnitude allows the script to complete on my machine.
Can you include the C level backtrace (your excerpt is snipped right at the interesting part :-) )?
Ok, here you go:
test.rb:30: [BUG] Segmentation fault at 0x00003437382d3231
ruby 3.2.1 (2023-02-08 revision 31819e82c8) [arm64-darwin21]
-- Crash Report log information --------------------------------------------
See Crash Report log file in one of the following locations:
* ~/Library/Logs/DiagnosticReports
* /Library/Logs/DiagnosticReports
for more details.
Don't forget to include the above Crash Report log file in bug reports.
-- Control frame information -----------------------------------------------
c:0007 p:---- s:0029 e:000028 CFUNC :execute
c:0006 p:0026 s:0023 e:000022 BLOCK test.rb:30 [FINISH]
c:0005 p:---- s:0019 e:000018 CFUNC :times
c:0004 p:0005 s:0015 e:000014 BLOCK test.rb:29
c:0003 p:0010 s:0012 e:000011 METHOD /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/benchmark.rb:311
c:0002 p:0005 s:0007 e:000006 BLOCK test.rb:28 [FINISH]
c:0001 p:---- s:0003 e:000002 DUMMY [FINISH]
-- Ruby level backtrace information ----------------------------------------
test.rb:28:in `block (2 levels) in <main>'
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/benchmark.rb:311:in `realtime'
test.rb:29:in `block (3 levels) in <main>'
test.rb:29:in `times'
test.rb:30:in `block (4 levels) in <main>'
test.rb:30:in `execute'
-- Machine register context ------------------------------------------------
x0: 0x000000012c6c6010 x1: 0x0000000000000078 x2: 0x000000016ded15b0
x3: 0x000000016ded15e0 x4: 0x000000016ded1f50 x5: 0x000000000000004f
x6: 0x000000000000003b x7: 0x0000000000000024 x18: 0x0000000000000000
x19: 0x000000016ded15d8 x20: 0x000000012c6c6010 x21: 0x000000016ded15b0
x22: 0x000000016ded15e0 x23: 0x000000003b9ac9eb x24: 0x00000001b1c88744
x25: 0x000000016ded1548 x26: 0x0000000000000001 x27: 0x0000000000000001
x28: 0x000000016ded1538 lr: 0x00000001b1b0b69c fp: 0x000000016ded12f0
sp: 0x000000016ded12b0
-- C level backtrace information -------------------------------------------
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(rb_vm_bugreport+0x9a0) [0x102f05f98]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(rb_bug_for_fatal_signal+0x160) [0x102d2a30c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(sig_do_nothing+0x0) [0x102e64854]
/usr/lib/system/libsystem_platform.dylib(_sigtramp+0x38) [0x1ab5fb4a4]
/usr/lib/libsqlite3.dylib(sqlite3SrcListAppend+0x60) [0x1b1b0b69c]
[0x1b1aea37c]
[0x1b1ae7bd4]
[0x1b1ae70a8]
[0x1b1ae6c08]
[0x102aa6738]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_nogvl+0x10c) [0x102ea25e8]
[0x102aa6834]
[0x102aa7ad0]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_call_cfunc_with_frame+0xe8) [0x102efa17c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_sendish+0x4cc) [0x102efc4dc]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_exec_core+0x239c) [0x102eddbc8]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_vm_exec+0xad4) [0x102ef10f0]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_invoke_block_from_c_bh+0x398) [0x102f00938]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_yield_1+0x7c) [0x102ee9708]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_int_dotimes+0x148) [0x102dc98ec]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_call_cfunc_with_frame+0xe8) [0x102efa17c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_sendish+0x4cc) [0x102efc4dc]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_exec_core+0x2350) [0x102eddb7c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_vm_exec+0xad4) [0x102ef10f0]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_vm_invoke_proc+0x4ac) [0x102eeed64]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_do_start_proc+0x2b0) [0x102eabd0c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_start_func_2+0x4a0) [0x102eab3f8]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_start_func_1+0x158) [0x102eaad48]
[0x1ab5e426c]
-- Other runtime information -----------------------------------------------
* Loaded script: test.rb
* Loaded features:
0 enumerator.so
1 thread.rb
2 fiber.so
3 rational.so
4 complex.so
5 ruby2_keywords.rb
6 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/arm64-darwin21/enc/encdb.bundle
7 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/arm64-darwin21/enc/trans/transdb.bundle
8 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/arm64-darwin21/rbconfig.rb
9 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/compatibility.rb
10 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/defaults.rb
11 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/deprecate.rb
12 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/errors.rb
13 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/unknown_command_spell_checker.rb
14 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/exceptions.rb
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17 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/platform.rb
18 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/util/list.rb
19 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/version.rb
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23 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/dependency.rb
24 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems/core_ext/kernel_gem.rb
25 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/arm64-darwin21/monitor.bundle
26 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/monitor.rb
27 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/site_ruby/3.2.0/rubygems.rb
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30 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/error_highlight/base.rb
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34 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/did_you_mean/version.rb
35 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/did_you_mean/core_ext/name_error.rb
36 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/did_you_mean/levenshtein.rb
37 /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/ruby/3.2.0/did_you_mean/jaro_winkler.rb
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* Process memory map:
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102418000-10241c000 --- /Library/Preferences/Logging/.plist-cache.sJoAuXKx
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1055b0000-1055b4000 --- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
1055b4000-105658000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105658000-10565c000 --- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
10565c000-105700000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
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105bd8000-105be8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105be8000-105bf8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105bf8000-105c08000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105c08000-105c18000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105c18000-105c28000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105c28000-105c38000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
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105c48000-105c58000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105c58000-105c68000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105c68000-105c78000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
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105c98000-105ca8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105ca8000-105cb8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105cb8000-105cc8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105cc8000-105cd8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105cd8000-105ce8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105ce8000-105cf8000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105cf8000-105d08000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d08000-105d18000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d18000-105d28000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d28000-105d38000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d38000-105d48000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d48000-105d58000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d58000-105d68000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d68000-105d70000 rw- /Users/fractaled/Code/Gems/sqlite3-ruby/db2.sqlite3-shm
105d70000-105d80000 rw- /Users/fractaled/.asdf/installs/ruby/3.2.1/bin/ruby
105d80000-105d8c000 r-- /Users/fractaled/.asdf/installs/ruby/3.2.1/bin/ruby
105d8c000-105d9c000 rw- /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib
105d9c000-1064f0000 r-- /Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib
1064f0000-106500000 rw- /usr/lib/system/libsystem_platform.dylib
106500000-106510000 rw- /usr/lib/system/libsystem_platform.dylib
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106520000-106530000 rw- /usr/lib/system/libsystem_platform.dylib
106530000-106540000 rw- /usr/lib/system/libsystem_platform.dylib
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[IMPORTANT]
Don't forget to include the Crash Report log file under
DiagnosticReports directory in bug reports.
zsh: abort ruby test.rb
For whatever reason, most of the time I run the script, I get error output like this:
test.rb:30: SEGV received in SEGV handler
[BUG] Segmentation fault at 0x0000000065707974
ruby 3.2.1 (2023-02-08 revision 31819e82c8) [arm64-darwin21]
-- Crash Report log information --------------------------------------------
See Crash Report log file in one of the following locations:
* ~/Library/Logs/DiagnosticReports zsh: abort ruby test.rb
I have to try a few times to get the fuller output. I'm guessing this is the difference between Ruby and the OS reporting a segfault?
I tried running your script and couldn't reproduce the segfault. I'm on Linux with sqlite 3.42.0. I made some minor tweak tou your script here: https://gist.github.com/noteflakes/f3fa888cabab132406cfd468ac209c93
My output:
$ N=1000000 ruby test/issue-59.rb
{:sqlite_version=>"3.42.0"}
{:N=>10000000}
{:fn1=>"/tmp/db1"}
{:fn2=>"/tmp/db2"}
{:count=>10000000}
{:some_rows=>[{:a=>1, :b=>"0-107"}, {:a=>2, :b=>"1-291"}, {:a=>3, :b=>"2-832"}, {:a=>4, :b=>"3-973"}, {:a=>5, :b=>"4-149"}]}
{:main_tables=>["t2"]}
{:db1_tables=>["t1"]}
{:indexing=>10.109243472004891}
{:inserting=>49.56610983800056}
{:count_t2=>10000000}
{:some_rows_t2=>[{:a=>1, :b=>"0-986"}, {:a=>2, :b=>"1-221"}, {:a=>3, :b=>"2-893"}, {:a=>4, :b=>"3-150"}, {:a=>5, :b=>"4-802"}]}
{:overall=>49.73627462500008}
I have to try a few times to get the fuller output. I'm guessing this is the difference between Ruby and the OS reporting a segfault?
Yeah I guess so, anyway the backtrace you did post doesn't really help pinpoint the problem.
You must be on a branch where db2.tables("db1") works, because that isn't in main. Which branch should I check out to get that feature to run the test?
Sorry, that change is now on the main branch.
Ok, running your script I actually get busy errors against 3.37.0, as you added transactions. When I remove the transactions, 3.37.0 segfaults. When I use 3.44.2, things run smoothly, even as I increase N. I have no idea what precisely the issue is, but it appears to be a SQLite issue resolved between 3.37.0 and 3.44.2. So, I'm closing this. Thanks for the help debugging.
I did, tho, just get a fuller C backtrace for a 3.37.0 segfault:
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(rb_vm_bugreport+0x9a0) [0x1033c9f98]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(rb_bug_for_fatal_signal+0x160) [0x1031ee30c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(sig_do_nothing+0x0) [0x103328854]
/usr/lib/system/libsystem_platform.dylib(_sigtramp+0x38) [0x1ab5fb4a4]
/usr/lib/libsqlite3.dylib(sqlite3VdbeExec+0x8310) [0x1b1b2dda4]
[0x1b1b25260]
[0x102fd6ab8]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_nogvl+0x10c) [0x1033665e8]
[0x102fd6b74]
[0x102fd778c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_ensure+0x158) [0x1031fa948]
[0x102fd7b44]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_call_cfunc_with_frame+0xe8) [0x1033be17c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_sendish+0x4cc) [0x1033c04dc]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_vm_exec_core+0x239c) [0x1033a1bc8]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_vm_exec+0xad4) [0x1033b50f0]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_rb_vm_invoke_proc+0x4ac) [0x1033b2d64]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_do_start_proc+0x2b0) [0x10336fd0c]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_start_func_2+0x4a0) [0x10336f3f8]
/Users/fractaled/.asdf/installs/ruby/3.2.1/lib/libruby.3.2.dylib(_thread_start_func_1+0x158) [0x10336ed48]
[0x1ab5e426c]