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papamarkou / ChemicalKinetics.jl

Simulation, Bayesian inference and Bayesian model selection for chemical kinetics in Julia
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[PkgEval] ChemicalKinetics may have a testing issue on Julia 0.4 (2014-08-15) #4

Open IainNZ opened 10 years ago

IainNZ commented 10 years ago

PackageEvaluator.jl is a script that runs nightly. It attempts to load all Julia packages and run their tests (if available) on both the stable version of Julia (0.3) and the nightly build of the unstable version (0.4). The results of this script are used to generate a package listing enhanced with testing results.

On Julia 0.4

Tests pass. means that PackageEvaluator found the tests for your package, executed them, and they all passed.

Tests fail, but package loads. means that PackageEvaluator found the tests for your package, executed them, and they didn't pass. However, trying to load your package with using worked.

This issue was filed because your testing status became worse. No additional issues will be filed if your package remains in this state, and no issue will be filed if it improves. If you'd like to opt-out of these status-change messages, reply to this message saying you'd like to and @IainNZ will add an exception. If you'd like to discuss PackageEvaluator.jl please file an issue at the repository. For example, your package may be untestable on the test machine due to a dependency - an exception can be added.

Test log:

>>> 'Pkg.add("ChemicalKinetics")' log
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0 8102k    0 13329    0     0  75396      0  0:01:50 --:--:--  0:01:50 75305
  3 8102k    3  312k    0     0   255k      0  0:00:31  0:00:01  0:00:30  255k
 26 8102k   26 2151k    0     0  1002k      0  0:00:08  0:00:02  0:00:06 1002k
100 8102k  100 8102k    0     0  2712k      0  0:00:02  0:00:02 --:--:-- 2711k

---------------------------------
Running SUNDIALS Configure Script
---------------------------------

Initialization
--------------

checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking whether make sets $(MAKE)... yes
checking for a BSD-compatible install... /usr/bin/install -c

C Compiler Settings
-------------------

checking for cc... cc
... truncated ...
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_direct.h  /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_dense.h   /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_band.h    /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_spgmr.h   /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_spbcgs.h  /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_sptfqmr.h /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_bbdpre.h  /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../include/kinsol/kinsol_spils.h   /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
/usr/bin/install -c -m 644 ./../../src/kinsol/kinsol_impl.h        /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/usr/include/kinsol/
make[1]: Leaving directory '/home/idunning/pkgtest/.julia/v0.4/Sundials/deps/src/sundials-2.5.0/src/kinsol'

INFO: Installing ArrayViews v0.4.6
INFO: Installing BinDeps v0.2.14
INFO: Installing ChemicalKinetics v0.1.0
INFO: Installing Distributions v0.5.4
INFO: Installing PDMats v0.2.3
INFO: Installing StatsBase v0.6.3
INFO: Installing Sundials v0.1.0
INFO: Installing URIParser v0.0.2
INFO: Building Sundials
INFO: Attempting to Create directory /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/downloads
INFO: Downloading file http://computation.llnl.gov/casc/sundials/download/code/sundials-2.5.0.tar.gz
INFO: Done downloading file http://computation.llnl.gov/casc/sundials/download/code/sundials-2.5.0.tar.gz
INFO: Attempting to Create directory /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/src
INFO: Attempting to Create directory /home/idunning/pkgtest/.julia/v0.4/Sundials/deps
INFO: Directory /home/idunning/pkgtest/.julia/v0.4/Sundials/deps already created
INFO: Attempting to Create directory /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/src/sundials-2.5.0
INFO: Changing Directory to /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/src/sundials-2.5.0
INFO: Changing Directory to /home/idunning/pkgtest/.julia/v0.4/Sundials/deps/src/sundials-2.5.0
INFO: Package database updated

>>> 'using ChemicalKinetics' log

>>> test log
Running tests:
  * test/simulateFitzhughNagumoODEs.jl *
    Testing simulation from Fitzhugh Nagumo ODEs...

ERROR: type Cholesky has no field uplo
 in _rand! at /home/idunning/pkgtest/.julia/v0.4/Distributions/src/multivariate/mvnormal.jl:131
 in simulate_ck_cvode_data at /home/idunning/pkgtest/.julia/v0.4/ChemicalKinetics/src/ode_solver.jl:98
 in anonymous at no file:23
 in include at ./boot.jl:245
 in include_from_node1 at ./loading.jl:128
 in anonymous at no file:8
 in include at ./boot.jl:245
 in include_from_node1 at loading.jl:128
 in process_options at ./client.jl:285
 in _start at ./client.jl:354
 in _start_3B_1724 at /home/idunning/julia04/usr/bin/../lib/julia/sys.so
while loading /home/idunning/pkgtest/.julia/v0.4/ChemicalKinetics/test/simulateFitzhughNagumoODEs.jl, in expression starting on line 15
while loading /home/idunning/pkgtest/.julia/v0.4/ChemicalKinetics/run_tests.jl, in expression starting on line 5

>>> end of log
IainNZ commented 10 years ago

https://github.com/JuliaLang/julia/pull/7236