Hi Mary,<br><br>Thanks for your reply. I tried the test you sent, and it fails with the same error message I sent previously, at the line:<br><br>fout = addfile(filename,"c").<br><br>I also discovered that our system administrators had installed an older version of NCL (5.1.1) on the computer (in a different folder, as part of a package of programs). I unset all the NC environment variables in hopes that there was just a search path issue, but it did not change anything. Besides environment variables, is there any other problem with multiple installations that might be causing this? <br>
<br><br>Best, <br><br>Madeline<br>
<br><div class="gmail_quote">2011/6/9 Mary Haley <span dir="ltr"><<a href="mailto:haley@ucar.edu" target="_blank">haley@ucar.edu</a>></span><br><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<div style="word-wrap: break-word;">Madeline,<div><br></div><div>Can you try this simple test on your RedHat system and let me know what happens? This test creates a small NetCDF-4 file and then tries to read it back in:</div>
<div><br></div><div><div>begin</div><div> x = random_uniform(-100,100,(/5,10/))</div><div><br></div><div>;---Write to netCDF-4 file</div><div> filename = "<a href="http://test_nc4.nc" target="_blank">test_nc4.nc</a>"</div>
<div> setfileoption("nc","format","netcdf4classic")</div><div> system("/bin/rm -f " + filename)</div><div><br></div><div> print("Writing to NC-4 file...")</div><div> fout = addfile(filename,"c")</div>
<div> fout->x = x</div><div> delete(fout) ; Close the file</div><div><br></div><div> fin = addfile(filename,"r")</div><div> print("Reading from NC-4 file...")</div><div> x2 = fin->x</div>
<div>
print("min/max x-x2 = " + min(x-x2) + "/" + max(x-x2))</div><div><br></div><div>; system("/bin/rm -f " + filename)</div><div>end</div><div><br></div><div><br></div><div>After you run this file, if you type:</div>
<div><br></div><div> file <a href="http://test_nc4.nc" target="_blank">test_nc4.nc</a></div><div><br></div><div>It should say something like:</div><div><br></div><div><div><a href="http://test_nc4.nc" target="_blank">test_nc4.nc</a>: Hierarchical Data Format (version 5) data</div>
</div><div><br></div><div>--Mary</div><div><br></div><div><div><div></div><div><div>On Jun 8, 2011, at 4:55 PM, Madeline Miller wrote:</div><br></div></div><blockquote type="cite"><div><div></div><div>
Hello,<br><br>I just installed NCL on a Linux Red Hat workstation. I used the pre-compiled binary ncl_ncarg-6.0.0.Linux_RedHat_x86_64_nodap_gcc412.tar, which matches my architecture and version of gcc. <br><br>I ran all the tests under the download instructions and they all worked fine. Then, I tried opening a .nc file in NCL using the command <br>
in=addfile("<a href="http://filename.nc" target="_blank">filename.nc</a>","r"). <br><br>I created the .nc file using MATLAB on my Linux workstation, and am able to read it on my Mac laptop using another version of NCL installed there. <br>
<br>However, on my Linux workstation it returns:<br><br><br>Warning! ***HDF5 library version mismatched error***<br>The HDF5 header files used to compile this application do not match<br>the version used by the HDF5 library to which this application is linked.<br>
Data corruption or segmentation faults may occur if the application continues.<br>This can happen when an application was compiled by one version of HDF5 but<br>linked with a different version of static or shared HDF5 library.<br>
You should recompile the application or check your shared library related<br>settings such as 'LD_LIBRARY_PATH'.<br>You can, at your own risk, disable this warning by setting the environment<br>variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.<br>
Setting it to 2 or higher will suppress the warning messages totally.<br>Headers are 1.8.5, library is 1.8.6<br> SUMMARY OF THE HDF5 CONFIGURATION<br> =================================<br><br>General Information:<br>
-------------------<br> HDF5 Version: 1.8.6<br> Configured on: Mon May 23 09:21:22 MDT 2011<br> Configured by: haley@mirage1<br> Configure mode: production<br>
Host system: x86_64-unknown-linux-gnu<br> Uname information: Linux mirage1 2.6.18-194.17.4.el5 #1 SMP Wed Oct 20 13:03:08 EDT 2010 x86_64 x86_64 x86_64 GNU/Linux<br> Byte sex: little-endian<br>
Libraries: <br> Installation point: /fs/blizzard/contrib/ncl-6.0.0/external<br><br>Compiling Options:<br>------------------<br> Compilation Mode: production<br> C Compiler: /usr/bin/gcc ( gcc (GCC) 4.1.2 20080704 )<br>
CFLAGS: -fPIC<br> H5_CFLAGS: -std=c99 -pedantic -Wall -Wextra -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -Wno-long-long -Wfloat-equal -Wmissing-format-attribute -Wmissing-noreturn -Wpacked -Wdisabled-optimization -Wformat=2 -Wunreachable-code -Wendif-labels -Wdeclaration-after-statement -Wold-style-definition -Winvalid-pch -Wvariadic-macros -Wnonnull -Winit-self -Wmissing-include-dirs -Wswitch-default -Wswitch-enum -Wunused-macros -Wunsafe-loop-optimizations -Wc++-compat -Wvolatile-register-var -O3 -fomit-frame-pointer -finline-functions<br>
AM_CFLAGS: <br> CPPFLAGS: -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE<br> H5_CPPFLAGS: -D_POSIX_SOURCE -DNDEBUG -UH5_DEBUG_API<br> AM_CPPFLAGS: -I/fs/blizzard/contrib/ncl-6.0.0/external/include -I/fs/blizzard/contrib/ncl-6.0.0/external/include -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_BSD_SOURCE <br>
Shared Libraries: no<br> Static Libraries: yes<br> Statically Linked Executables: no<br> LDFLAGS: <br> AM_LDFLAGS: -L/fs/blizzard/contrib/ncl-6.0.0/external/lib -L/fs/blizzard/contrib/ncl-6.0.0/external/lib<br>
Extra libraries: -lsz -lz -lm <br> Archiver: ar<br> Ranlib: ranlib<br> Debugged Packages: <br> API Tracing: no<br><br>Languages:<br>
----------<br> Fortran: no<br> C++: no<br><br>Features:<br>---------<br> Parallel HDF5: no<br> High Level library: yes<br> Threadsafety: no<br>
Default API Mapping: v18<br> With Deprecated Public Symbols: yes<br> I/O filters (external): deflate(zlib),szip(encoder)<br> I/O filters (internal): shuffle,fletcher32,nbit,scaleoffset<br> MPE: no<br>
Direct VFD: no<br> dmalloc: no<br>Clear file buffers before write: yes<br> Using memory checker: no<br> Function Stack Tracing: no<br> GPFS: no<br>
Strict File Format Checks: no<br> Optimization Instrumentation: no<br> Large File Support (LFS): yes<br> H5dump Packed Bits: yes<br>Bye...<br>Aborted<br><br><br>Does anyone know what the problem is and/or what I can do to fix this?<br>
<br>Thanks,<br><br>Madeline<br></div></div> _______________________________________________<br>ncl-install mailing list<br>List instructions, subscriber options, unsubscribe:<br><a href="http://mailman.ucar.edu/mailman/listinfo/ncl-install" target="_blank">http://mailman.ucar.edu/mailman/listinfo/ncl-install</a><br>
</blockquote></div><br></div></div></blockquote></div><br><br clear="all"><br>-- <br>Madeline Miller<br>Ph.D. Candidate - Mechanical Engineering<br>California Institute of Technology<br>1200 E. California Blvd., MC 100-23<br>
Pasadena, CA 91125<br><br><br>