[ncl-talk] Seg fault on draw() after a WRAPIT function call

Tue Jun 30 15:23:16 MDT 2015

Nope, That was just for my terrible pseudo example of whats going on.

 Thought it may have been something like that so have changed my variables,
and function names.  Haven't managed to figure it out yet.

On Tue, Jun 30, 2015 at 4:59 PM, Dennis Shea <shea at ucar.edu> wrote:

> Wild guess. R u using 'data' as a variable? Try another name. NCL's parser
> may be confused
>
> Sent from my iPhone
>
> On Jun 30, 2015, at 2:34 PM, Alan Brammer <abrammer at albany.edu> wrote:
>
> I have a bizarre error, where after I have processed data through a
> fortran function. When I call the plotting routines I will then get a
> seg-fault.
>
>
> pseudo-code
>
> external ex01 "./somefunctions.so"
>
> plot = gsn_csm_map(wks, mpres)
> draw(plot)
> frame(wks)
> ;; everything is fine.
>
>
> ex01::somefunction(data,data2)
> printVarSummary(data)
> ;; everything is still fine.
>
> plot = gsn_csm_map(wks, mpres)
>  printVarSummary(plot)
> ;; everything still good.
>
>
> draw(plot)  ;; and now we seg fault.
>
>
> Below is the memory dump I got on one occasion.
> I can send the code to one of the devs for further delving if needed.
>
> Thanks,
> Alan.
>
>
> ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
>
> ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
>
>
> *** glibc detected *** ncl: free(): invalid next size (normal):
> 0x000000001d0c7530 ***
>
> ======= Backtrace: =========
>
> /lib64/libc.so.6[0x3e89e714af]
>
> /lib64/libc.so.6(cfree+0x4b)[0x3e89e757ab]
>
> ncl(NhlFree+0xe)[0xacc6c5]
>
> ncl(_NhlSetLayerValues+0x659)[0xaa3d5b]
>
> ncl(NhlVASetValues+0xf2)[0xaa42be]
>
> ncl[0xb086f7]
>
> ncl[0xb08cae]
>
> ncl[0xa9761c]
>
> ncl(_NhlDraw+0x7f)[0xa97845]
>
> ncl[0xafd72b]
>
> ncl[0xa9761c]
>
> ncl(_NhlPlotManagerDraw+0xbd)[0xa97999]
>
> ncl(NhlDraw+0xd1)[0xa97af1]
>
> ncl(_NclIDraw+0xaa)[0x8610fb]
>
> ncl(CallINTRINSIC_PROC_CALL+0x43)[0x80e472]
>
> ncl(_NclExecute+0x3e8)[0x8160d5]
>
> ncl(yyparse+0x78f)[0x6d9a59]
>
> ncl(NclDriver+0xc23)[0x6d61b2]
>
> ncl(main+0x9)[0x6d27c1]
>
> /lib64/libc.so.6(__libc_start_main+0xf4)[0x3e89e1d9f4]
>
> ncl(vfprintf+0x729)[0x6d2709]
>
> ======= Memory map: ========
>
> 00400000-0254a000 r-xp 00000000 00:13 85713900
> /nfs/ct12/abrammer/ncl6.3.0/bin/ncl
>
> 02749000-0299a000 rw-p 02149000 00:13 85713900
> /nfs/ct12/abrammer/ncl6.3.0/bin/ncl
>
> 0299a000-06bd9000 rw-p 0299a000 00:00 0
>
> 14210000-1d1ba000 rw-p 14210000 00:00 0
> [heap]
>
> 3e89a00000-3e89a1c000 r-xp 00000000 08:01 5096834
> /lib64/ld-2.5.so
>
> 3e89c1c000-3e89c1d000 r--p 0001c000 08:01 5096834
> /lib64/ld-2.5.so
>
> 3e89c1d000-3e89c1e000 rw-p 0001d000 08:01 5096834
> /lib64/ld-2.5.so
>
> 3e89e00000-3e89f4f000 r-xp 00000000 08:01 5096835
> /lib64/libc-2.5.so
>
> 3e89f4f000-3e8a14f000 ---p 0014f000 08:01 5096835
> /lib64/libc-2.5.so
>
> 3e8a14f000-3e8a153000 r--p 0014f000 08:01 5096835
> /lib64/libc-2.5.so
>
> 3e8a153000-3e8a154000 rw-p 00153000 08:01 5096835
> /lib64/libc-2.5.so
>
> 3e8a154000-3e8a159000 rw-p 3e8a154000 00:00 0
>
> 3e8a200000-3e8a282000 r-xp 00000000 08:01 5096849
> /lib64/libm-2.5.so
>
> 3e8a282000-3e8a481000 ---p 00082000 08:01 5096849
> /lib64/libm-2.5.so
>
> 3e8a481000-3e8a482000 r--p 00081000 08:01 5096849
> /lib64/libm-2.5.so
>
> 3e8a482000-3e8a483000 rw-p 00082000 08:01 5096849
> /lib64/libm-2.5.so
>
> 3e8a600000-3e8a602000 r-xp 00000000 08:01 5096852
> /lib64/libdl-2.5.so
>
> 3e8a602000-3e8a802000 ---p 00002000 08:01 5096852
> /lib64/libdl-2.5.so
>
> 3e8a802000-3e8a803000 r--p 00002000 08:01 5096852
> /lib64/libdl-2.5.so
>
> 3e8a803000-3e8a804000 rw-p 00003000 08:01 5096852
> /lib64/libdl-2.5.so
>
> 3e8aa00000-3e8aa14000 r-xp 00000000 08:01 5096841
> /lib64/libz.so.1.2.3
>
> 3e8aa14000-3e8ac13000 ---p 00014000 08:01 5096841
> /lib64/libz.so.1.2.3
>
> 3e8ac13000-3e8ac14000 rw-p 00013000 08:01 5096841
> /lib64/libz.so.1.2.3
>
> 3e8ae00000-3e8ae16000 r-xp 00000000 08:01 5096903
> /lib64/libpthread-2.5.so
>
> 3e8ae16000-3e8b016000 ---p 00016000 08:01 5096903
> /lib64/libpthread-2.5.so
>
> 3e8b016000-3e8b017000 r--p 00016000 08:01 5096903
> /lib64/libpthread-2.5.so
>
> 3e8b017000-3e8b018000 rw-p 00017000 08:01 5096903
> /lib64/libpthread-2.5.so
>
> 3e8b018000-3e8b01c000 rw-p 3e8b018000 00:00 0
>
> 3e8b200000-3e8b305000 r-xp 00000000 08:01 661720
> /usr/lib64/libX11.so.6.2.0
>
> 3e8b305000-3e8b505000 ---p 00105000 08:01 661720
> /usr/lib64/libX11.so.6.2.0
>
> 3e8b505000-3e8b50c000 rw-p 00105000 08:01 661720
> /usr/lib64/libX11.so.6.2.0
>
> 3e8b600000-3e8b60d000 r-xp 00000000 08:01 661728
> /usr/lib64/libgomp.so.1.0.0
>
> 3e8b60d000-3e8b80d000 ---p 0000d000 08:01 661728
> /usr/lib64/libgomp.so.1.0.0
>
> 3e8b80d000-3e8b80e000 rw-p 0000d000 08:01 661728
> /usr/lib64/libgomp.so.1.0.0
>
> 3e8ba00000-3e8ba05000 r-xp 00000000 08:01 661604
> /usr/lib64/libXdmcp.so.6.0.0
>
> 3e8ba05000-3e8bc04000 ---p 00005000 08:01 661604
> /usr/lib64/libXdmcp.so.6.0.0
>
> 3e8bc04000-3e8bc05000 rw-p 00004000 08:01 661604
> /usr/lib64/libXdmcp.so.6.0.0
>
> 3e8be00000-3e8be10000 r-xp 00000000 08:01 663683
> /usr/lib64/libXext.so.6.4.0
>
> 3e8be10000-3e8c010000 ---p 00010000 08:01 663683
> /usr/lib64/libXext.so.6.4.0
>
> 3e8c010000-3e8c011000 rw-p 00010000 08:01 663683
> /usr/lib64/libXext.so.6.4.0
>
> 3e8c200000-3e8c27f000 r-xp 00000000 08:01 658528
> /usr/lib64/libfreetype.so.6.3.10
>
> 3e8c27f000-3e8c47f000 ---p 0007f000 08:01 658528
> /usr/lib64/libfreetype.so.6.3.10
>
> 3e8c47f000-3e8c484000 rw-p 0007f000 08:01 658528
> /usr/lib64/libfreetype.so.6.3.10
>
> 3e8c600000-3e8c621000 r-xp 00000000 08:01 5096843
> /lib64/libexpat.so.0.5.0
>
> 3e8c621000-3e8c820000 ---p 00021000 08:01 5096843
> /lib64/libexpat.so.0.5.0
>
> 3e8c820000-3e8c823000 rw-p 00020000 08:01 5096843
> /lib64/libexpat.so.0.5.0
>
> 3e8ca00000-3e8ca07000 r-xp 00000000 08:01 5096905
> /lib64/librt-2.5.so
>
> 3e8ca07000-3e8cc07000 ---p 00007000 08:01 5096905
> /lib64/librt-2.5.so
>
> 3e8cc07000-3e8cc08000 r--p 00007000 08:01 5096905
> /lib64/librt-2.5.so
>
> 3e8cc08000-3e8cc09000 rw-p 00008000 08:01 5096905
> /lib64/librt-2.5.so
>
> 3e8d200000-3e8d229000 r-xp 00000000 08:01 659871
> /usr/lib64/libfontconfig.so.1.1.0
>
> 3e8d229000-3e8d429000 ---p 00029000 08:01 659871
> /usr/lib64/libfontconfig.so.1.1.0
>
> 3e8d429000-3e8d433000 rw-p 00029000 08:01 659871
> /usr/lib64/libfontconfig.so.1.1.0
>
> 3e8d433000-3e8d434000 rw-p 3e8d433000 00:00 0
>
> 3e8d600000-3e8d609000 r-xp 00000000 08:01 661844
> /usr/lib64/libXrender.so.1.3.0
>
> 3e8d609000-3e8d808000 ---p 00009000 08:01 661844
> /usr/lib64/libXrender.so.1.3.0
>
> 3e8d808000-3e8d809000 rw-p 00008000 08:01 661844
> /usr/lib64/libXrender.so.1.3.0
>
> 3e8fe00000-3e8fe0d000 r-xp 00000000 08:01 5096853
> /lib64/libgcc_s-4.1.2-20080825.so.1
>
> 3e8fe0d000-3e9000d000 ---p 0000d000 08:01 5096853
> /lib64/libgcc_s-4.1.2-20080825.so.1
>
> 3e9000d000-3e9000e000 rw-p 0000d000 08:01 5096853
> /lib64/libgcc_s-4.1.2-20080825.so.1
>
> 3e90600000-3e906e6000 r-xp 00000000 08:01 664282
> /usr/lib64/libstdc++.so.6.0.8
>
> 3e906e6000-3e908e5000 ---p 000e6000 08:01 664282
> /usr/lib64/libstdc++.so.6.0.8
>
> 3e908e5000-3e908eb000 r--p 000e5000 08:01 664282
> /usr/lib64/libstdc++.so.6.0.8
>
> 3e908eb000-3e908ee000 rw-p 000eb000 08:01 664282
> /usr/lib64/libstdc++.so.6.0.8
>
> 3e908ee000-3e90900000 rw-p 3e908ee000 00:00 0
>
> 3e90e00000-3e90e15000 r-xp 00000000 08:01 5096863
> /lib64/libselinux.so.1
>
> 3e90e15000-3e91015000 ---p 00015000 08:01 5096863
> /lib64/libselinux.so.1
>
> 3e91015000-3e91017000 rw-p 00015000 08:01 5096863
> /lib64/libselinux.so.1
>
> 3e91017000-3e91018000 rw-p 3e91017000 00:00 0
>
> 3e91200000-3e9123b000 r-xp 00000000 08:01 5096861
> /lib64/libsepol.so.1
>
> 3e9123b000-3e9143b000 ---p 0003b000 08:01 5096861
> /lib64/libsepol.so.1
>
> 3e9143b000-3e9143c000 rw-p 0003b000 08:01 5096861
> /lib64/libsepol.so.1
>
> 3e9143c000-3e91446000 rw-p 3e9143c000 00:00 0
>
> 3e93c00000-3e93c15000 r-xp 00000000 08:01 5097142
> /lib64/libnsl-2.5.so
>
> 3e93c15000-3e93e14000 ---p 00015000 08:01 5097142
> /lib64/libnsl-2.5.so
>
> 3e93e14000-3e93e15000 r--p 00014000 08:01 5097142
> /lib64/libnsl-2.5.so
>
> 3e93e15000-3e93e16000 rw-p 0001Abort
>
>
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