Chronological Thread 

< Chronological >      < Thread >

---

Hi



Not sure whether I am missing something obvious, let me know. If not, I'll
make a tracker item for this:



Note CellML2C is fine, and "make check" finds no errors.



With revision 2638, when I do a clean checkout and a make (as described in
https://svn.physiomeproject.org/svn/physiome/CellML_DOM_API/trunk/docs/build
_process_kubuntu_7_10.txt ), and then try to run RunCellML on a CellML file,
there seems to be a link problem:



/usr/bin/ld: cannot find -lcis

collect2: ld returned 1 exit status



Tried export LD_LIBRARY_PATH=.libs, but still got same problem.



Also tried "make install", which resulted in a lot of cellml .so's in
/usr/local/lib,

Setting LD_LIBRARY_PATH to /usr/local/lib, and trying again:

Trying that results in a huge text output.



$ ./RunCellML ../DAEsModel/SimpleDAE_NonLinear4.cellml > errors.txt 2>&1





*** glibc detected *** /home/rbri053/Now/CellMLapi/.libs/lt-RunCellML:
free(): invalid pointer: 0x0804c3f0 ***

======= Backtrace: =========

/lib/tls/i686/cmov/libc.so.6[0xb7af3a85]

/lib/tls/i686/cmov/libc.so.6(cfree+0x90)[0xb7af74f0]

/home/rbri053/Now/CellMLapi/.libs/libcis.so.0(dAx_eq_b_LU_noLapack+0x36b)[0x
b7cfb90b]

/home/rbri053/Now/CellMLapi/.libs/libcis.so.0(dlevmar_dif+0x8fd)[0xb7cfc3dd]

/home/rbri053/Now/CellMLapi/.libs/libcis.so.0(do_levmar+0xc6)[0xb7ce55b6]

/tmp/3tpeCY6LKp8aiUOMXrDDLwLgY/generated.so(ComputeRates+0x80)[0xb7f73880]

/home/rbri053/Now/CellMLapi/.libs/libcis.so.0(_ZN24CDA_CellMLIntegrationRun9
runthreadEv+0x1a5)[0xb7ce0c45]

/home/rbri053/Now/CellMLapi/.libs/libcis.so.0(_ZN9CDAThread13start_routineEP
v+0x11)[0xb7ce4541]

/lib/tls/i686/cmov/libpthread.so.0[0xb79304fb]

/lib/tls/i686/cmov/libc.so.6(clone+0x5e)[0xb7b5ee5e]

======= Memory map: ========

08048000-0804b000 r-xp 00000000 08:08 129637
/home/rbri053/Now/CellMLapi/.libs/lt-RunCellML

0804b000-0804c000 rw-p 00003000 08:08 129637
/home/rbri053/Now/CellMLapi/.libs/lt-RunCellML

0804c000-080cd000 rw-p 0804c000 00:00 0 [heap]

b6d00000-b6d21000 rw-p b6d00000 00:00 0

b6d21000-b6e00000 ---p b6d21000 00:00 0

b6e8e000-b6e8f000 ---p b6e8e000 00:00 0

b6e8f000-b7691000 rw-p b6e8f000 00:00 0

b7691000-b76a5000 r-xp 00000000 08:06 796692 /usr/lib/libz.so.1.2.3.3

b76a5000-b76a6000 rw-p 00013000 08:06 796692 /usr/lib/libz.so.1.2.3.3

b76a6000-b787a000 r-xp 00000000 08:06 798951 /usr/lib/libgsl.so.0.10.0

b787a000-b7884000 rw-p 001d3000 08:06 798951 /usr/lib/libgsl.so.0.10.0

b7884000-b7886000 r-xp 00000000 08:06 319641
/lib/tls/i686/cmov/libdl-2.7.so

b7886000-b7888000 rw-p 00001000 08:06 319641
/lib/tls/i686/cmov/libdl-2.7.so

b7888000-b7893000 r-xp 00000000 08:08 129567
/home/rbri053/Now/CellMLapi/.libs/libannotools.so.0.0.0

b7893000-b7894000 rw-p 0000a000 08:08 129567
/home/rbri053/Now/CellMLapi/.libs/libannotools.so.0.0.0

b7894000-b7896000 rw-p b7894000 00:00 0

b7896000-b78a7000 r-xp 00000000 08:08 129579
/home/rbri053/Now/CellMLapi/.libs/libcevas.so.0.0.0

b78a7000-b78a9000 rw-p 00010000 08:08 129579
/home/rbri053/Now/CellMLapi/.libs/libcevas.so.0.0.0

b78a9000-b78d3000 r-xp 00000000 08:08 129573
/home/rbri053/Now/CellMLapi/.libs/libcuses.so.0.0.0

b78d3000-b78d4000 rw-p 00029000 08:08 129573
/home/rbri053/Now/CellMLapi/.libs/libcuses.so.0.0.0

b78d4000-b78d5000 rw-p b78d4000 00:00 0

b78d5000-b78fa000 r-xp 00000000 08:08 129585
/home/rbri053/Now/CellMLapi/.libs/libmalaes.so.0.0.0

b78fa000-b78fb000 rw-p 00025000 08:08 129585
/home/rbri053/Now/CellMLapi/.libs/libmalaes.so.0.0.0

b78fb000-b78fc000 rw-p b78fb000 00:00 0

b78fc000-b7928000 r-xp 00000000 08:08 129592
/home/rbri053/Now/CellMLapi/.libs/libccgs.so.0.0.0

b7928000-b792a000 rw-p 0002b000 08:08 129592
/home/rbri053/Now/CellMLapi/.libs/libccgs.so.0.0.0

b792a000-b792b000 rw-p b792a000 00:00 0

b792b000-b793f000 r-xp 00000000 08:06 319654
/lib/tls/i686/cmov/libpthread-2.7.so

b793f000-b7941000 rw-p 00013000 08:06 319654
/lib/tls/i686/cmov/libpthread-2.7.so

b7941000-b7944000 rw-p b7941000 00:00 0

b7944000-b7a5d000 r-xp 00000000 08:06 798784 /usr/lib/libxml2.so.2.6.31

b7a5d000-b7a62000 rw-p 00119000 08:06 798784 /usr/lib/libxml2.so.2.6.31

b7a62000-b7a63000 rw-p b7a62000 00:00 0

b7a63000-b7a86000 r-xp 00000000 08:06 319642
/lib/tls/i686/cmov/libm-2.7.so

b7a86000-b7a88000 rw-p 00023000 08:06 319642
/lib/tls/i686/cmov/libm-2.7.so

b7a88000-b7bd1000 r-xp 00000000 08:06 319637
/lib/tls/i686/cmov/libc-2.7.so

b7bd1000-b7bd2000 r--p 00149000 08:06 319637
/lib/tls/i686/cmov/libc-2.7.so

b7bd2000-b7bd4000 rw-p 0014a000 08:06 319637
/lib/tls/i686/cmov/libc-2.7.so

b7bd4000-b7bd7000 rw-p b7bd4000 00:00 0

b7bd7000-b7be1000 r-xp 00000000 08:06 319551 /lib/libgcc_s.so.1

b7be1000-b7be2000 rw-p 0000a000 08:06 319551 /lib/libgcc_s.so.1

b7be2000-b7cca000 r-xp 00000000 08:06 795949 /usr/lib/libstdc++.so.6.0.9

b7cca000-b7ccd000 r--p 000e8000 08:06 795949 Aborted





-------------- next part --------------
An HTML attachment was scrubbed...
URL:
<http://www.cellml.org/pipermail/cellml-tools-developers/attachments/20080912/33b67cb6/attachment.htm>

---

• [cellml-dev] Can't get RunCellML going, Randall Britten, 09/12/2008
  • [cellml-dev] Can't get RunCellML going, Andrew Miller, 09/12/2008
    • [cellml-dev] Can't get RunCellML going, Randall Britten, 09/15/2008

---

Archive powered by MHonArc 2.6.18.