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From: Khikhlukha Danila <Danila.Khikhlukha@eli-beams.eu>
To: "picongpu-users@hzdr.de" <picongpu-users@hzdr.de>
Subject: splash2txt assert fail
Thread-Topic: splash2txt assert fail
Thread-Index: AdHHvrgT4QI1yHieQiqURVgX+VLh5A==
Date: Thu, 16 Jun 2016 11:24:34 +0000
Message-ID: <BA7C853FEE430847B9C35FFCC6E5B2A52675F7DA@braun.eli-beams.eu>
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Dear all,
Recently with 0.1.2 I observe a strange behavior of splash2txt. Likely I'm =
misusing the tool, however I just want to confirm...

So my simulation was launched with an option " --hdf5.period 1000 --hdf5.fi=
le simData". In the ouput directory I observe a bunch of files  simData_*.h=
5 with numeration starts from 0.
I want to plot Ey fieled sliced in xy direction @ step =3D 10000. I found t=
he example of how to use splash2txt here https://git.io/vo07M. I modified i=
t a bit and invoke the following:
splash2txt --slice xy -s 10000 -d fields/FieldE/y --offset 0 --delimiter " =
" --input-file simData

I got an array of data to stdout and in the end:
splash2txt: /home/danila/tools/picongpu/src/tools/splash2txt/tools_splash_p=
arallel.cpp:200: void ToolsSplashParallel::printFields(std::vector<ExDataCo=
ntainer>
[GPU:11444] *** Process received signal ***
[GPU:11444] Signal: Aborted (6)
[GPU:11444] Signal code:  (-6)
[GPU:11444] [ 0] /lib/x86_64-linux-gnu/libpthread.so.0(+0xf8d0 [0x7fe308546=
8d0]
[GPU:11444] [ 1] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x37) [0x7fe3071f8=
067]
[GPU:11444] [ 2] /lib/x86_64-linux-gnu/libc.so.6(abort+0x148) [0x7fe3071f94=
48]
[GPU:11444] [ 3] /lib/x86_64-linux-gnu/libc.so.6(+0x2e266) [0x7fe3071f1266]
[GPU:11444] [ 4] /lib/x86_64-linux-gnu/libc.so.6(+0x2e312) [0x7fe3071f1312]
[GPU:11444] [ 5] splash2txt(_ZN19ToolsSplashParallel11printFieldsESt6vector=
I15ExDataContainerSaIS1_EE+0x2b2) [0x46e9fa]
[GPU:11444] [ 6] splash2txt(_ZN19ToolsSplashParallel13convertToTextEv+0xa9a=
) [0x46f638]
[GPU:11444] [ 7] splash2txt(main+0x278) [0x454597]
[GPU:11444] [ 8] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf5) [0=
x7fe3071e4b45]
[GPU:11444] [ 9] splash2txt() [0x452c2f]
[GPU:11444] *** End of error message ***
Aborted

However I'm not sure that I'm using splash2txt correctly. Could you please =
take a look?

Thank you in advance,
Danila.

--_000_BA7C853FEE430847B9C35FFCC6E5B2A52675F7DAbraunelibeamseu_
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<meta http-equiv=3D"Content-Type" content=3D"text/html; charset=3Diso-8859-=
1">
<style id=3D"owaParaStyle" type=3D"text/css">P {margin-top:0;margin-bottom:=
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<div style=3D"direction: ltr;font-family: Tahoma;color: #000000;font-size: =
10pt;">Dear all,<br>
Recently with 0.1.2 I observe a strange behavior of splash2txt. Likely I'm =
misusing the tool, however I just want to confirm...<br>
<br>
So my simulation was launched with an option &quot; --hdf5.period 1000 --hd=
f5.file simData&quot;. In the ouput directory I observe a bunch of files&nb=
sp; simData_*.h5 with numeration starts from 0.<br>
I want to plot Ey fieled sliced in xy direction @ step =3D 10000. I found t=
he example of how to use splash2txt here
<a href=3D"https://git.io/vo07M." target=3D"_blank">https://git.io/vo07M.</=
a> I modified it a bit and invoke the following:<br>
splash2txt --slice xy -s 10000 -d fields/FieldE/y --offset 0 --delimiter &q=
uot; &quot; --input-file simData<br>
<br>
I got an array of data to stdout and in the end:<br>
splash2txt: /home/danila/tools/picongpu/src/tools/splash2txt/tools_splash_p=
arallel.cpp:200: void ToolsSplashParallel::printFields(std::vector&lt;ExDat=
aContainer&gt;<br>
[GPU:11444] *** Process received signal ***&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] Signal: Aborted (6)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] Signal code:&nbsp; (-6)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 0] /lib/x86_64-linux-gnu/libpthread.so.0(&#43;0xf8d0 [0x7fe30=
85468d0]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 1] /lib/x86_64-linux-gnu/libc.so.6(gsignal&#43;0x37) [0x7fe30=
71f8067]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbs=
p;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&=
nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 2] /lib/x86_64-linux-gnu/libc.so.6(abort&#43;0x148) [0x7fe307=
1f9448]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 3] /lib/x86_64-linux-gnu/libc.so.6(&#43;0x2e266) [0x7fe3071f1=
266]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 4] /lib/x86_64-linux-gnu/libc.so.6(&#43;0x2e312) [0x7fe3071f1=
312]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 5] splash2txt(_ZN19ToolsSplashParallel11printFieldsESt6vector=
I15ExDataContainerSaIS1_EE&#43;0x2b2) [0x46e9fa]
<br>
[GPU:11444] [ 6] splash2txt(_ZN19ToolsSplashParallel13convertToTextEv&#43;0=
xa9a) [0x46f638]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;
<br>
[GPU:11444] [ 7] splash2txt(main&#43;0x278) [0x454597]&nbsp;&nbsp;&nbsp;&nb=
sp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;=
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nb=
sp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;=
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nb=
sp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;=
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 8] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main&#43;0xf5=
) [0x7fe3071e4b45]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nb=
sp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;=
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<br>
[GPU:11444] [ 9] splash2txt() [0x452c2f]&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;
<br>
[GPU:11444] *** End of error message ***&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;
<br>
Aborted&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp=
;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&n=
bsp;&nbsp;&nbsp;&nbsp;
<br>
<br>
However I'm not sure that I'm using splash2txt correctly. Could you please =
take a look?<br>
<br>
Thank you in advance,<br>
Danila.<br>
</div>
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