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Segfault after ^C during long REPL printout #12883

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protogeezer opened this issue Aug 31, 2015 · 1 comment
Closed

Segfault after ^C during long REPL printout #12883

protogeezer opened this issue Aug 31, 2015 · 1 comment
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io Involving the I/O subsystem: libuv, read, write, etc. REPL Julia's REPL (Read Eval Print Loop)

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@protogeezer
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The R data frame can be downloaded from https://github.com/coreysparks/data
The data frame is 18000x5000...
Two different tracebacks are included.

et-imac-retina:julia sjbespa$ ./julia
               _
   _       _ _(_)_     |  A fresh approach to technical computing
  (_)     | (_) (_)    |  Documentation: http://docs.julialang.org
   _ _   _| |_  __ _   |  Type "?help" for help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 0.4.0-pre+7105 (2015-08-30 15:16 UTC)
 _/ |\__'_|_|_|\__'_|  |  Commit 349a4e1* (0 days old master)
|__/                   |  x86_64-apple-darwin14.5.0

julia> eclsk_cs = read_rda("/Users/sjbespa/research/Education/30 - data/ECLSK-1998/ECLSK-coreysparks/data-master/eclsk.Rdata", convertdataframes=true);

julia> ecls_df = eclsk_cs["eclsk"]
5000x18949 DataFrames.DataFrame
| Row  | CHILDID    | PARENTID   | S1_ID  | S2_ID  | S3_ID  | S4_ID  | S5_ST_ID | S5_ID  | S6_ST_ID | S6_ID  | S7_ID  |
|------|------------|------------|--------|--------|--------|--------|----------|--------|----------|--------|--------|
| 1    | "0001001C" | "0001001P" | "0001" | "0001" | NA     | "0002" | NA       | NA     | NA       | NA     | NA     |
| 2    | "0001002C" | "0001002P" | "0001" | "0001" | NA     | "6005" | "6005"   | "6005" | "6005"   | "A053" | "C001" |
| 3    | "0001003C" | "0001003P" | "0001" | "0001" | NA     | "9997" | "9997"   | "9997" | NA       | NA     | NA     |
| 4    | "0001004C" | "0001004P" | "0001" | "0001" | NA     | "6009" | "6009"   | "6009" | NA       | NA     | NA     |
| 5    | "0001005C" | "0001005P" | "0001" | "0001" | NA     | "0003" | "7197"   | "7197" | NA       | NA     | NA     |
| 6    | "0001006C" | "0001006P" | "0001" | "0001" | NA     | "6026" | "6026"   | "6026" | NA       | NA     | NA     |
| 7    | "0001007C" | "0001007P" | "0001" | "0001" | NA     | "6027" | "6027"   | "6027" | "6027"   | "6027" | "C009" |
| 8    | "0001008C" | "0001008P" | "0001" | "0001" | NA     | "9997" | "9997"   | "9997" | "9997"   | "9997" | "D245" |
⋮
| 4992 | "0343009C" | "0343009P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | NA       | NA     | NA     |
| 4993 | "0343010C" | "0343010P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | NA       | NA     | "A455" |
| 4994 | "0343011C" | "0343011P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | NA     |
| 4995 | "0343012C" | "0343012P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | "E388" |
| 4996 | "0343013C" | "0343013P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | "0343" |
| 4997 | "0343014C" | "0343014P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | "0343" |
| 4998 | "0343015C" | "0343015P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | "0343" |
| 4999 | "0343016C" | "0343016P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | "C632" |
| 5000 | "0343017C" | "0343017P" | "0343" | "0343" | "0343" | "0343" | "0343"   | "0343" | "0343"   | "0343" | NA     |

.
. [~25K lines later]
.
| Row  | C1PW61  | C1PW62  | C1PW63  | C1PW64  | C1PW65  | C1PW66  | C1PW67  | C1PW68  | C1PW69  | C1PW70  | C1PW71  |
|------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
| 1    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 2    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 3    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 4    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 5    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 6    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 7    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
| 8    | 170.06  | 169.288 | 171.48  | 174.327 | 340.961 | 172.219 | 171.192 | 171.48  | 171.48  | 171.48  | 168.017 |
⋮
| 4992 | 186.218 | 186.218 | 186.218 | 184.503 | 185.318 | 185.22  | 186.194 | 185.938 | 184.142 | 182.982 | 189.397 |
| 4993 | 186.218 | 186.218 | 186.218 | 184.503 | 185.318 | 185.22  | 186.^C185."Error showing value of type 

^CERROR: InterruptException:
 in enq_work at ./task.jl:322
 in uv_writecb_task at ./stream.jl:1010
 in jlcapi_uv_writecb_task_19298 at /Users/sjbespa/work/julia/julia-0.4.0-dev/julia/usr/lib/julia/sys.dylib
 in process_events at ./stream.jl:695
 in wait at ./task.jl:360
 in stream_wait at ./stream.jl:285
 in uv_write at ./stream.jl:939
 in buffer_or_write at ./stream.jl:952
 in write at ./stream.jl:992
 in print at ./strings/io.jl:29
 in print at strings/io.jl:6
 in print_response at REPL.jl:140
 in print_response at REPL.jl:122
 in anonymous at REPL.jl:624
 in run_interface at ./LineEdit.jl:1610
 in run_frontend at ./REPL.jl:863
 in run_repl at ./REPL.jl:167
 in _start at ./client.jl:453
===================================
| 4999 | 21.0     | 4.0     | 1.0      | 2.0     | 2.0      | 3.0     | 12.0     | 2.0     | 1.0     | 1.0      | 1.0      | 4.0      | 4^C Error showing value of type ERROR: AssertionError: d != C_NULL
 in uv_writecb_task at ./stream.jl:1005
 in jlcapi_uv_writecb_task_19241 at /Users/sjbespa/work/julia/julia-0.4.0-dev/julia/usr/lib/julia/sys.dylib
 in process_events at ./stream.jl:695
 in wait at ./task.jl:360
 in stream_wait at ./stream.jl:285
 in uv_write at ./stream.jl:939
 in buffer_or_write at ./stream.jl:952
 in write at ./stream.jl:992
 in print at ./strings/io.jl:29
 in print at strings/io.jl:6
 in print_response at REPL.jl:140
 in print_response at REPL.jl:122
 in anonymous at REPL.jl:624
 in run_interface at ./LineEdit.jl:1610
 in run_frontend at ./REPL.jl:863
 in run_repl at ./REPL.jl:167
 in _start at ./client.jl:453
signal (11): Segmentation fault: 11
uv__write_callbacks at /Users/sjbespa/work/julia/julia-0.4.0-dev/julia/deps/libuv/src/unix/stream.c:890
uv__run_pending at /Users/sjbespa/work/julia/julia-0.4.0-dev/julia/deps/libuv/src/unix/core.c:637
process_events at ./stream.jl:695
wait at ./task.jl:360
stream_wait at ./stream.jl:285
uv_write at ./stream.jl:939
buffer_or_write at ./stream.jl:968
write at ./stream.jl:992
print at ./strings/io.jl:29
jlcall_print_19140 at /Users/sjbespa/work/julia/julia-0.4.0-dev/julia/usr/lib/julia/sys.dylib (unknown line)
with_output_color at util.jl:316


Segmentation fault: 11

[pao: code block formatting, fix unintentional Markdown headline]
@pao pao changed the title InterruptExceptions after ^C during long REPL printout Segfault after ^C during long REPL printout Aug 31, 2015
@pao pao added the REPL Julia's REPL (Read Eval Print Loop) label Aug 31, 2015
@JeffBezanson
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Segfault fixed by #12839

@JeffBezanson JeffBezanson added the io Involving the I/O subsystem: libuv, read, write, etc. label Sep 17, 2015
JeffBezanson added a commit that referenced this issue Sep 17, 2015
@JeffBezanson
fix an incorrect assertion when interrupting output with ^C
7427de6 
further helps e.g. #12883
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