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Sage 3.0.4 is ancient
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## page was renamed from skynet-3.0.4 |
Getting Sage-3.0.4 to build and pass all tests on Skynet
Tarballs are here:
http://sage.math.washington.edu/home/was/tmp
To get from rc0 to rc1 from within a built sage do this:
sage: hg_sage.apply('http://sage.math.washington.edu/home/was/patches/a.hg') sage: hg_sage.merge() sage: hg_sage.ci()
Then do "./sage -br" at the prompt.
eno: x86_64-Linux-fc8 (status: 10/10)
Using gcc-4.3.1: I (william) can't build ntl. I'm totally stuck until getting past this. Fixed by using this environment (put in my .bash_profile):
# From mabshoff if [ `hostname` = "eno" ]; then export PATH=/usr/local/gcc-4.3.1/x86_64-Linux-fc8/bin/:$PATH export LD_LIBRARY_PATH=/usr/local/gcc-4.3.1/x86_64-Linux-fc8/lib64:/usr/local/gmp-4.2.2/x86_64-Linux-fc8-gcc-4.1.2-rh/lib:/usr/local/mpfr-2.3.1/x86_64-Linux-fc8-gmp-4.2.2-gcc-4.1.2-rh/lib fi
Me (mabshoff) just build 4.0.3.rc1 with gcc 4.3.1 and all tests pass with flying colors.
cicero: x86-Linux-fc8 (status: 10/10)
UPDATE: I just built rc2 using gcc-4.3.1, and I definitely do *not* get an illegal instruction when testing devel/sage/sage/functions/special.py. The only doctest failure I get is one digit being off in time_series.py (numerical noise), which I've fixed in the release tree.
wstein@cicero sage-3.0.4.rc2]$ ./sage -t devel/sage/sage/functions/special.py sage -t devel/sage/sage/functions/special.py [10.2 s] ---------------------------------------------------------------------- All tests passed!
I wonder if Mariah has some screwed up fortran libraries or something in her path? From a clean bash login shell I setup my environment as follows
export PATH=/usr/local/bin/x86-Linux-fc8/:$PATH LDPATH=/usr/local/gcc-4.3.1/x86-Linux-fc8/lib LDPATH=${LDPATH}:/usr/local/gmp-4.2.2/x86-Linux-fc8-gcc-4.1.2-rh/lib LDPATH=${LDPATH}:/usr/local/mpfr-2.3.1/x86-Linux-fc8-gmp-4.2.2-gcc-4.1.2-rh/lib
OLD: Using gcc-4.1.2: built fine out of the box; all tests for rc1 pass.
Using gcc-4.3.1: Mariah gets an "illegal instruction" error when testing
sage -t devel/sage/sage/functions/special.py
See http://trac.sagemath.org/sage_trac/ticket/2303
Replicate sage-free:
sage -python >>> import scipy.special; scipy.special.iv(float(1),complex(1,0)) /tmp/foo/sage-3.0.4.rc0-x86-Linux-fc8/local/bin/sage-sage: line 359: 2638 Illegal instruction python "$
* Michael suggested upgrading to the newest version of scipy. This is certainly worth a try.
cleo: ia64-Linux-rhel5 (status: ?/10)
UPDATE: This machine's Linux kernel or something is screwed up, so it is not useful for build/testing purposes until it gets fixed.
Using gcc-4.1.2: Built fine out of the box. Currently testing; many tests have timed out since this machine is so slow. Possible serious singular crash in groups/matrix_gps/matrix_group.py, though it could be a timeout. There is something massively foobar'd about this machine or its file system or something. For example:
[wstein@cleo sage-3.0.4.rc0]$ time ./sage -c "print 1+1" 2 real 0m26.532s user 0m1.447s sys 0m3.224s
A 26 second startup time? Ick. Is there something seriously wrong with the build of Python?
iras: ia64-Linux-suse (status: 10/10)
UPDATE: these fail for me:
Singular crashing on startup via pexpect for these 3: sage -t devel/sage/sage/rings/polynomial/multi_polynomial_ideal_libsingular.pyx # 1 doctes ts failed sage -t devel/sage/sage/rings/polynomial/multi_polynomial_ideal.py # 6 doctests failed sage -t devel/sage/sage/groups/matrix_gps/matrix_group.py # 3 doctests failed
Everything else listed below as failing does not fail for me anymore.
The above is all because somebody (malb) took the wrong singular spkg to make a new version thus completely deleting the important patch here:
I reapplied it and made a new singular spkg.
A complete crash example
sage: MS = MatrixSpace(GF(7),2,2); MatrixGroup([MS([[0,1],[-1,0]]),MS([[1,1],[2,3]])]).invariant_generators() --------------------------------------------------------------------------- RuntimeError Traceback (most recent call last) /home/wstein/iras/build/sage-3.0.4.rc0/<ipython console> in <module>() /home/wstein/iras/build/sage-3.0.4.rc0/local/lib/python2.5/site-packages/sage/groups/matrix_g ps/matrix_group.py in invariant_generators(self) 799 singular.eval('list %s=group_reynolds((%s))'%(ReyName,Lgens)) 800 IRName = 't'+singular._next_var_name() --> 801 singular.eval('matrix %s = invariant_algebra_reynolds(%s[1])'%(IRName,Rey Name)) 802 OUT = [singular.eval(IRName+'[1,%d]'%(j)) for j in range(1,1+singular('nc ols('+IRName+')'))] 803 return [PR(gen) for gen in OUT] /home/wstein/iras/build/sage-3.0.4.rc0/local/lib/python2.5/site-packages/sage/interfaces/sing ular.py in eval(self, x, allow_semicolon, strip) 425 x += ';' 426 --> 427 s = Expect.eval(self, x) 428 429 if s.find("error") != -1 or s.find("Segment fault") != -1: /home/wstein/iras/build/sage-3.0.4.rc0/local/lib/python2.5/site-packages/sage/interfaces/expe ct.py in eval(self, code, strip, synchronize, **kwds) 915 try: 916 with gc_disabled(): --> 917 return '\n'.join([self._eval_line(L, **kwds) for L in code.split('\n' ) if L != '']) 918 except KeyboardInterrupt: 919 # DO NOT CATCH KeyboardInterrupt, as it is being caught /home/wstein/iras/build/sage-3.0.4.rc0/local/lib/python2.5/site-packages/sage/interfaces/expe ct.py in _eval_line(self, line, allow_use_file, wait_for_prompt) 642 # we expect to get an EOF if we're quitting. 643 return '' --> 644 raise RuntimeError, "%s\n%s crashed executing %s"%(msg,self, line ) 645 out = E.before 646 else: RuntimeError: End Of File (EOF) in read_nonblocking(). Exception style platform. version: 2.0 ($Revision: 1.151 $) command: /home/wstein/iras/build/sage-3.0.4.rc0/local/bin/Singular args: ['/home/wstein/iras/build/sage-3.0.4.rc0/local/bin/Singular', '-t', '--ticks-per-sec', '1000'] patterns: > buffer (last 100 chars): before (last 100 chars): `ncols` error at token `)` ? leaving finvar.lib::invariant_algebra_reynolds Auf Wiedersehen. after: <class 'pexpect.EOF'> match: None match_index: None exitstatus: None flag_eof: 1 pid: 6962 child_fd: 3 timeout: None delimiter: <class 'pexpect.EOF'> logfile: None maxread: 1000 searchwindowsize: None delaybeforesend: 0 Singular crashed executing matrix tsage4 = invariant_algebra_reynolds(tsage3[1]);
- With gcc-4.3.1 the following tests all fail out of the box
The following tests failed: (done) sage -t devel/sage/sage/rings/polynomial/polynomial_element.pyx # 1 doctests failed sage -t devel/sage/sage/rings/polynomial/multi_polynomial_ideal_libsingular.pyx # 1 doctes ts failed sage -t devel/sage/sage/rings/polynomial/multi_polynomial_ideal.py # 6 doctests failed sage -t devel/sage/sage/rings/number_field/totallyreal.py # Segfault sage -t devel/sage/sage/plot/plot3d/transform.pyx # 1 doctests failed sage -t devel/sage/sage/misc/prandom.py # 1 doctests failed sage -t devel/sage/sage/matrix/matrix_symbolic_dense.pyx # 1 doctests failed sage -t devel/sage/sage/groups/matrix_gps/matrix_group.py # 3 doctests failed sage -t devel/sage/sage/functions/piecewise.py # 1 doctests failed sage -t devel/sage/sage/dsage/tests/testdoc.py # 10 doctests failed sage -t devel/sage/sage/dsage/interface/dsage_interface.py # 2 doctests failed sage -t devel/sage/sage/rings/polynomial/polynomial_integer_dense_flint.pyx # 0 doctests f ailed
Update to 3.0.4.alpha2: With a fix to the python.spkg (build without -fwrapv) results in:
sage -t -long devel/sage/sage/finance/time_series.pyx sage -t -long devel/sage/sage/misc/cython.py sage -t -long devel/sage/sage/rings/number_field/totallyreal.py sage -t -long devel/sage/sage/rings/polynomial/polynomial_element.pyx sage -t -long devel/sage/sage/rings/polynomial/polynomial_integer_dense_flint.pyx
It seems that all the above failures are know issue and we have leads for all of them. In particular:
- trac #3605 (ell_finite_field.py: libSingular - "Use of uninitialised value of size 8"
- trac #3606 (totallyreal_data.py: "Use of uninitialised value of size 8"
There is a major bug in flint that freezes doctesting. See http://trac.sagemath.org/sage_trac/ticket/3616
- segmentation fault
sh: line 1: 16098 Segmentation fault /home/wstein/iras/build/sage-3.0.4.rc0/local/bin/python /home/wstein/iras/build/sage-3.0.4.rc0/tmp/.doctest_totallyreal.py >/tmp/tmpW-loSD 2>/tmp/tmp8ZjloU sage -t devel/sage/sage/rings/number_field/totallyreal.py A mysterious error (perphaps a memory error?) occurred, which may have crashed doctest.
I think this is related to the valgrind issues that mabshoff observed and reported.
* Bill Hart says:
FLINT definitely isn't working on ia64. I've tracked the problem a bit further through now that I know lots of tests are failing in long_extras-test. The problem appears to be in the function z_ll_mod_precomp in long_extras.c This function uses udiv_qrnnd from GMP's longlong.h and not a whole lot else, so that is a hint. This doesn't mean there is a bug in GMP, it probably just means that on this architecture FLINT is setting something up incorrectly before using longlong.h. It shouldn't take too much to sort out. I mean the function that is causing all the problems is only 20 lines of code and all pretty basic.
Update from Bill Hart: There will be a FLINT 1.0.11 in a couple hours (i.e. July 9th, 2008)
menas: x86_64-Linux-suse (status: 10/10)
UPDATE: trac #3628 -- http://trac.sagemath.org/sage_trac/ticket/3628 completely resolves this with no special spkg needed.
With gcc-4.2.1 and reverting to the old version of clisp all tests pass for sage-4.3.1.rc0:
sage -i clisp-2.41.p14.spkg sage -f maxima-5.13.0.p2.spkg
Without reverting clisp, maxima hangs on certain integrals:
integrate(1/(x^3 *(a+b*x)^(1/3)), x);
I think reverting clisp will be ok for this architecture and for this release since the only reason for the new version was build support on more architectures.
Fix so that new clisp will at least build without not finding readline: http://trac.sagemath.org/sage_trac/ticket/3628
Pentium4: Another "relevant" machine (status: 9/10)
(done) A bug in FLINT 1.011. See http://trac.sagemath.org/sage_trac/ticket/3627
- doctests fail for:
sage -t devel/sage/sage/dsage/tests/testdoc.py sage -t devel/sage/sage/server/simple/twist.py
These both involve network services. The testdoc failure is a pure timeout issue with a.wait(30), so safe to ignore -- everything else in that file passes fine. I think the twist.py issue also involves some sort of timeout. I am so tempted to redo the doctests for testdoc and twist or declare them undoctestable... but that is for later.