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2 tests fail
$ CTEST_OUTPUT_ON_FAILURE=1 make test
===> Testing for hyphy-2.5.42
Set default compiler flags to -fsigned-char -O3 -msse3
/usr/local/lib/libcurl.so
Node not installed; API documentation will not be generated
-Wl,-rpath=/usr/local/lib/gcc11 -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc11 -fopenmp=libomp
-- Configuring done
-- Generating done
-- Build files have been written to: /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42
ninja: no work to do.
[ 0% 1/1] cd /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42 && /usr/local/bin/ctest --force-new-ctest-process
Test project /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42
Start 1: UNIT-TESTS
^Cninja: build stopped: interrupted by user.
*** Error code 2
[yuri@yv /usr/ports/biology/hyphy]$ CTEST_OUTPUT_ON_FAILURE=1 make test
===> Testing for hyphy-2.5.42
Set default compiler flags to -fsigned-char -O3 -msse3
/usr/local/lib/libcurl.so
Node not installed; API documentation will not be generated
-Wl,-rpath=/usr/local/lib/gcc11 -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc11 -fopenmp=libomp
-- Configuring done
-- Generating done
-- Build files have been written to: /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42
ninja: no work to do.
[ 0% 1/1] cd /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42 && /usr/local/bin/ctest --force-new-ctest-process
Test project /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42
Start 1: UNIT-TESTS
1/20 Test #1: UNIT-TESTS .......................***Failed 2.55 sec
./tests/hbltests/UnitTests/HBLCommands/Abs.bf
./tests/hbltests/UnitTests/HBLCommands/Add.bf
./tests/hbltests/UnitTests/HBLCommands/Ampersand.bf
./tests/hbltests/UnitTests/HBLCommands/Arctan.bf
./tests/hbltests/UnitTests/HBLCommands/BayesianGraphicalModel.bf
./tests/hbltests/UnitTests/HBLCommands/Beta.bf
./tests/hbltests/UnitTests/HBLCommands/BranchLength.bf
./tests/hbltests/UnitTests/HBLCommands/Branchcount.bf
./tests/hbltests/UnitTests/HBLCommands/Branchname.bf
./tests/hbltests/UnitTests/HBLCommands/CChi2.bf
./tests/hbltests/UnitTests/HBLCommands/CGammaDist.bf
./tests/hbltests/UnitTests/HBLCommands/Call.bf
./tests/hbltests/UnitTests/HBLCommands/Caret.bf
./tests/hbltests/UnitTests/HBLCommands/Category.bf
./tests/hbltests/UnitTests/HBLCommands/Columns.bf
./tests/hbltests/UnitTests/HBLCommands/Continue.bf
./tests/hbltests/UnitTests/HBLCommands/Cos.bf
./tests/hbltests/UnitTests/HBLCommands/DataSet.bf
./tests/hbltests/UnitTests/HBLCommands/DataSetFilter.bf
./tests/hbltests/UnitTests/HBLCommands/DeleteObject.bf
./tests/hbltests/UnitTests/HBLCommands/Differentiate.bf
./tests/hbltests/UnitTests/HBLCommands/Divide.bf
./tests/hbltests/UnitTests/HBLCommands/Do.bf
./tests/hbltests/UnitTests/HBLCommands/DoSQL.bf
./tests/hbltests/UnitTests/HBLCommands/Dollarsign.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleAmpersand.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleEquals.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleVerticalBar.bf
./tests/hbltests/UnitTests/HBLCommands/Eigensystem.bf
./tests/hbltests/UnitTests/HBLCommands/Erf.bf
./tests/hbltests/UnitTests/HBLCommands/Eval.bf
./tests/hbltests/UnitTests/HBLCommands/ExclamationPoint.bf
Check errors.log for execution error details.
./tests/hbltests/UnitTests/HBLCommands/ExclamationPointEquals.bf
./tests/hbltests/UnitTests/HBLCommands/ExecuteAFile.bf
./tests/hbltests/UnitTests/HBLCommands/ExecuteCommands.bf
./tests/hbltests/UnitTests/HBLCommands/Exp.bf
./tests/hbltests/UnitTests/HBLCommands/Export.bf
./tests/hbltests/UnitTests/HBLCommands/Ffunction.bf
./tests/hbltests/UnitTests/HBLCommands/FindRoot.bf
./tests/hbltests/UnitTests/HBLCommands/For.bf
./tests/hbltests/UnitTests/HBLCommands/Format.bf
./tests/hbltests/UnitTests/HBLCommands/Function.bf
./tests/hbltests/UnitTests/HBLCommands/Gamma.bf
./tests/hbltests/UnitTests/HBLCommands/GammaDist.bf
./tests/hbltests/UnitTests/HBLCommands/GetDataInfo.bf
./tests/hbltests/UnitTests/HBLCommands/GetInformation.bf
./tests/hbltests/UnitTests/HBLCommands/GetString.bf
./tests/hbltests/UnitTests/HBLCommands/Greaterthan.bf
./tests/hbltests/UnitTests/HBLCommands/Greaterthanorequalto.bf
./tests/hbltests/UnitTests/HBLCommands/HarvestFrequencies.bf
./tests/hbltests/UnitTests/HBLCommands/IBeta.bf
./tests/hbltests/UnitTests/HBLCommands/IGamma.bf
./tests/hbltests/UnitTests/HBLCommands/If.bf
./tests/hbltests/UnitTests/HBLCommands/Integrate.bf
./tests/hbltests/UnitTests/HBLCommands/Inverse.bf
./tests/hbltests/UnitTests/HBLCommands/JSON.bf
./tests/hbltests/UnitTests/HBLCommands/Join.bf
./tests/hbltests/UnitTests/HBLCommands/LUDecompose.bf
./tests/hbltests/UnitTests/HBLCommands/LUSolve.bf
./tests/hbltests/UnitTests/HBLCommands/Lessthan.bf
./tests/hbltests/UnitTests/HBLCommands/Lessthanorequalto.bf
./tests/hbltests/UnitTests/HBLCommands/LnGamma.bf
./tests/hbltests/UnitTests/HBLCommands/LoadFunctionLibrary.bf
./tests/hbltests/UnitTests/HBLCommands/Log.bf
./tests/hbltests/UnitTests/HBLCommands/MAccess_bracket.bf
./tests/hbltests/UnitTests/HBLCommands/Max.bf
./tests/hbltests/UnitTests/HBLCommands/Min.bf
./tests/hbltests/UnitTests/HBLCommands/Model.bf
./tests/hbltests/UnitTests/HBLCommands/Percentsign.bf
./tests/hbltests/UnitTests/HBLCommands/Random.bf
./tests/hbltests/UnitTests/HBLCommands/ReplicateConstraint.bf
./tests/hbltests/UnitTests/HBLCommands/RequireVersion.bf
./tests/hbltests/UnitTests/HBLCommands/RerootTree.bf
./tests/hbltests/UnitTests/HBLCommands/Return.bf
./tests/hbltests/UnitTests/HBLCommands/Rows.bf
./tests/hbltests/UnitTests/HBLCommands/Simplex.bf
./tests/hbltests/UnitTests/HBLCommands/Simplify.bf
./tests/hbltests/UnitTests/HBLCommands/SimulateDataSet.bf
./tests/hbltests/UnitTests/HBLCommands/Sin.bf
./tests/hbltests/UnitTests/HBLCommands/Sqrt.bf
./tests/hbltests/UnitTests/HBLCommands/Sscanf.bf
./tests/hbltests/UnitTests/HBLCommands/Subtract.bf
./tests/hbltests/UnitTests/HBLCommands/Tan.bf
./tests/hbltests/UnitTests/HBLCommands/Time.bf
./tests/hbltests/UnitTests/HBLCommands/TipCount.bf
./tests/hbltests/UnitTests/HBLCommands/TipName.bf
./tests/hbltests/UnitTests/HBLCommands/Topology.bf
./tests/hbltests/UnitTests/HBLCommands/Transpose.bf
./tests/hbltests/UnitTests/HBLCommands/Tree.bf
./tests/hbltests/UnitTests/HBLCommands/Type.bf
./tests/hbltests/UnitTests/HBLCommands/While.bf
./tests/hbltests/UnitTests/HBLCommands/ZCDF.bf
./tests/hbltests/UnitTests/HBLCommands/assert.bf
./tests/hbltests/UnitTests/HBLCommands/break.bf
./tests/hbltests/UnitTests/HBLCommands/fscanf_fprintf.bf
./tests/hbltests/UnitTests/HBLCommands/include.bf
./tests/hbltests/UnitTests/HBLCommands/lfunction.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_iofunctions.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_math.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_utilityfunctions.bf
./tests/hbltests/UnitTests/HBLCommands/namespace.bf
\n\n------------------------SUMMARY (Failed Tests)----------------------------\n
\n The following tests failed:
run_unit_tests.sh: line 35: ./tests/hbltests/UnitTests/HBLCommands/ExclamationPoint.bf: Permission denied
\n The output of the failed tests is below: \n
--------------------------------------------------------------
[Running COVERAGE TEST '!']
Error:
Failed to parse '"Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)"' with the following error: Constant expression inside `` did not evaluate to a string in the following context: '"<ERROR HERE>Failed to return 1 when ' in call to assert(!validPath==1, "Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)");
Function call stack
1 : assert(!validPath==1, "Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)");
-------
2 : result=runTest();
-------
3 : runATest();
-------
Check errors.log for execution error details.
\n
\n\n------------------------SUMMARY (Failed Tests)----------------------------\n
1 Tests Failed
of 101 Tests Run
Start 2: CODON
2/20 Test #2: CODON ............................ Passed 2.53 sec
Start 3: PROTEIN
3/20 Test #3: PROTEIN .......................... Passed 11.27 sec
Start 4: MTCODON
4/20 Test #4: MTCODON .......................... Passed 66.87 sec
Start 5: ALGAE
5/20 Test #5: ALGAE ............................ Passed 24.80 sec
Start 6: CILIATES
6/20 Test #6: CILIATES ......................... Passed 34.39 sec
Start 7: SLAC
7/20 Test #7: SLAC ............................. Passed 8.24 sec
Start 8: SLAC-PARTITIONED
8/20 Test #8: SLAC-PARTITIONED ................. Passed 31.52 sec
Start 9: FEL
9/20 Test #9: FEL .............................. Passed 54.79 sec
Start 10: MEME
10/20 Test #10: MEME ............................. Passed 152.96 sec
Start 11: MEME-PARTITIONED
11/20 Test #11: MEME-PARTITIONED ................. Passed 117.76 sec
Start 12: BUSTED
12/20 Test #12: BUSTED ........................... Passed 59.01 sec
Start 13: BUSTED-SRV
13/20 Test #13: BUSTED-SRV ....................... Passed 104.01 sec
Start 14: RELAX
14/20 Test #14: RELAX ............................ Passed 132.36 sec
Start 15: FUBAR
15/20 Test #15: FUBAR ............................ Passed 7.40 sec
Start 16: BGM
16/20 Test #16: BGM .............................. Passed 6.88 sec
Start 17: CONTRAST-FEL
17/20 Test #17: CONTRAST-FEL ..................... Passed 156.13 sec
Start 18: GARD
18/20 Test #18: GARD .............................***Failed 18.18 sec
Analysis Description
--------------------
GARD : Genetic Algorithms for Recombination Detection. Implements a
heuristic approach to screening alignments of sequences for
recombination, by using the CHC genetic algorithm to search for
phylogenetic incongruence among different partitions of the data. The
number of partitions is determined using a step-up procedure, while the
placement of breakpoints is searched for with the GA. The best fitting
model (based on c-AIC) is returned; and additional post-hoc tests run to
distinguish topological incongruence from rate-variation. v0.2 adds and
spooling results to JSON after each breakpoint search conclusion
- __Requirements__: A sequence alignment.
- __Citation__: **Automated Phylogenetic Detection of Recombination Using a Genetic
Algorithm**, _Mol Biol Evol 23(10), 1891–1901
- __Written by__: Sergei L Kosakovsky Pond
- __Contact Information__: [email protected]
- __Analysis Version__: 0.2
type: nucleotide
rv: None
>Maximum number of breakpoints to consider (permissible range = [1,100000], default value = 10000, integer): max-breakpoints: 10000
mode: Normal
>Loaded a nucleotide multiple sequence alignment with **12** sequences, **428** sites (22 of which are variable) from `/disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42/tests/hbltests/libv3/data/HRVI.nex`
>Minimum size of a partition is set to be 21 sites
### Fitting the baseline (single-partition; no breakpoints) model
* Log(L) = -694.30, AIC-c = 1450.97 (29 estimated parameters)
### Performing an exhaustive single breakpoint analysis
Done with single breakpoint analysis.
Best sinlge break point location: 176
c-AIC = 1465.723660379992
### Performing multi breakpoint analysis using a genetic algorithm
Done with 2 breakpoint analysis.
Best break point locations: 130, 253
c-AIC = 1492.879980856286
Error:
<'constant' operation 'X'>, where 'X' is not a number.
constant = 0
'X' = {
{1, 428}
}
While computing: Abs(gard.json["breakpointData"]["bps"]-{
{1, 428}
})==0
Function call stack
1 : assert(Abs((gard.json["breakpointData"])["bps"]-{{1,428}})==0, "Incorrect breakpoints");
-------
Check errors.log for execution error details.
Start 19: FADE
19/20 Test #19: FADE ............................. Passed 68.05 sec
Start 20: ABSREL
20/20 Test #20: ABSREL ........................... Passed 105.23 sec
90% tests passed, 2 tests failed out of 20
Total Test time (real) = 1164.96 sec
The following tests FAILED:
1 - UNIT-TESTS (Failed)
18 - GARD (Failed)
Errors while running CTest
FAILED: CMakeFiles/test.util
cd /disk-samsung/freebsd-ports/biology/hyphy/work/hyphy-2.5.42 && /usr/local/bin/ctest --force-new-ctest-process
ninja: build stopped: subcommand failed.
*** Error code 1
FreeBSD 13.1
Dear @yurivict,
Thanks very much for reporting these issues. I don't have a FreeBDS test rig set up handy, so I am going to tag @stevenweaver who is much more skilled at cross-platform testing to see what the issue might be. I have an idea about what the first error might be, but really puzzled by the second.
Best, Sergei
![github-actions[bot] avatar](https://avatars.githubusercontent.com/in/15368?v=4 "Published by a pub.dev verified publisher"){kind=small}
Dear @yurivict,
Well, that was embarrassing. I forgot to merge the pull request fixing the issues before tagging off a 2.5.43. I've re-released 2.5.43 with the fixes included.
Sorry about this.
Best, Sergei
Now the test UNIT-TESTS runs for over an hour and doesn't finish.
Is this normal?
Dear @yurivict,
Not normal. Unit tests should not take more than a second or two. I do not see this behavior with the 2.5.43 on the test system I have been using...
azureuser@FreeBSD:~/hyphy $ uname -a
FreeBSD FreeBSD 13.1-RELEASE-p3 FreeBSD 13.1-RELEASE-p3 GENERIC amd64
azureuser@FreeBSD:~/hyphy $ make test
Running tests...
Test project /usr/home/azureuser/hyphy
Start 1: UNIT-TESTS
1/20 Test #1: UNIT-TESTS ....................... Passed 1.96 sec
Start 2: CODON
2/20 Test #2: CODON ............................ Passed 1.50 sec
Start 3: PROTEIN
3/20 Test #3: PROTEIN .......................... Passed 10.20 sec
Start 4: MTCODON
4/20 Test #4: MTCODON .......................... Passed 36.58 sec
Start 5: ALGAE
5/20 Test #5: ALGAE ............................ Passed 12.45 sec
Start 6: CILIATES
6/20 Test #6: CILIATES ......................... Passed 23.62 sec
Start 7: SLAC
7/20 Test #7: SLAC ............................. Passed 4.12 sec
Start 8: SLAC-PARTITIONED
8/20 Test #8: SLAC-PARTITIONED ................. Passed 14.43 sec
Start 9: FEL
9/20 Test #9: FEL .............................. Passed 36.11 sec
Start 10: MEME
10/20 Test #10: MEME ............................. Passed 95.53 sec
Start 11: MEME-PARTITIONED
11/20 Test #11: MEME-PARTITIONED ................. Passed 76.79 sec
Start 12: BUSTED
12/20 Test #12: BUSTED ........................... Passed 25.77 sec
Start 13: BUSTED-SRV
13/20 Test #13: BUSTED-SRV ....................... Passed 26.28 sec
Start 14: RELAX
14/20 Test #14: RELAX ............................ Passed 56.22 sec
Start 15: FUBAR
15/20 Test #15: FUBAR ............................ Passed 0.65 sec
Start 16: BGM
16/20 Test #16: BGM .............................. Passed 3.68 sec
Start 17: CONTRAST-FEL
17/20 Test #17: CONTRAST-FEL ..................... Passed 101.03 sec
Start 18: GARD
18/20 Test #18: GARD ............................. Passed 0.09 sec
Start 19: FADE
19/20 Test #19: FADE ............................. Passed 5.12 sec
Start 20: ABSREL
20/20 Test #20: ABSREL ........................... Passed 40.08 sec
100% tests passed, 0 tests failed out of 20
Can you try
$bash run_unit_tests.sh
to see which individual unit test gets stuck?
Best, Sergei
$ bash run_unit_tests.sh
./tests/hbltests/UnitTests/HBLCommands/Abs.bf
./tests/hbltests/UnitTests/HBLCommands/Add.bf
./tests/hbltests/UnitTests/HBLCommands/Ampersand.bf
./tests/hbltests/UnitTests/HBLCommands/Arctan.bf
./tests/hbltests/UnitTests/HBLCommands/BayesianGraphicalModel.bf
./tests/hbltests/UnitTests/HBLCommands/Beta.bf
./tests/hbltests/UnitTests/HBLCommands/BranchLength.bf
./tests/hbltests/UnitTests/HBLCommands/Branchcount.bf
./tests/hbltests/UnitTests/HBLCommands/Branchname.bf
./tests/hbltests/UnitTests/HBLCommands/CChi2.bf
./tests/hbltests/UnitTests/HBLCommands/CGammaDist.bf
./tests/hbltests/UnitTests/HBLCommands/Call.bf
./tests/hbltests/UnitTests/HBLCommands/Caret.bf
./tests/hbltests/UnitTests/HBLCommands/Category.bf
./tests/hbltests/UnitTests/HBLCommands/Columns.bf
./tests/hbltests/UnitTests/HBLCommands/Continue.bf
./tests/hbltests/UnitTests/HBLCommands/Cos.bf
./tests/hbltests/UnitTests/HBLCommands/DataSet.bf
./tests/hbltests/UnitTests/HBLCommands/DataSetFilter.bf
./tests/hbltests/UnitTests/HBLCommands/DeleteObject.bf
./tests/hbltests/UnitTests/HBLCommands/Differentiate.bf
./tests/hbltests/UnitTests/HBLCommands/Divide.bf
./tests/hbltests/UnitTests/HBLCommands/Do.bf
./tests/hbltests/UnitTests/HBLCommands/DoSQL.bf
./tests/hbltests/UnitTests/HBLCommands/Dollarsign.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleAmpersand.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleEquals.bf
./tests/hbltests/UnitTests/HBLCommands/DoubleVerticalBar.bf
./tests/hbltests/UnitTests/HBLCommands/Eigensystem.bf
./tests/hbltests/UnitTests/HBLCommands/Erf.bf
./tests/hbltests/UnitTests/HBLCommands/Eval.bf
./tests/hbltests/UnitTests/HBLCommands/ExclamationPoint.bf
Check errors.log for execution error details.
./tests/hbltests/UnitTests/HBLCommands/ExclamationPointEquals.bf
./tests/hbltests/UnitTests/HBLCommands/ExecuteAFile.bf
./tests/hbltests/UnitTests/HBLCommands/ExecuteCommands.bf
./tests/hbltests/UnitTests/HBLCommands/Exp.bf
./tests/hbltests/UnitTests/HBLCommands/Export.bf
./tests/hbltests/UnitTests/HBLCommands/Ffunction.bf
./tests/hbltests/UnitTests/HBLCommands/FindRoot.bf
./tests/hbltests/UnitTests/HBLCommands/For.bf
./tests/hbltests/UnitTests/HBLCommands/Format.bf
./tests/hbltests/UnitTests/HBLCommands/Function.bf
./tests/hbltests/UnitTests/HBLCommands/Gamma.bf
./tests/hbltests/UnitTests/HBLCommands/GammaDist.bf
./tests/hbltests/UnitTests/HBLCommands/GetDataInfo.bf
./tests/hbltests/UnitTests/HBLCommands/GetInformation.bf
./tests/hbltests/UnitTests/HBLCommands/GetString.bf
./tests/hbltests/UnitTests/HBLCommands/Greaterthan.bf
./tests/hbltests/UnitTests/HBLCommands/Greaterthanorequalto.bf
./tests/hbltests/UnitTests/HBLCommands/HarvestFrequencies.bf
./tests/hbltests/UnitTests/HBLCommands/IBeta.bf
./tests/hbltests/UnitTests/HBLCommands/IGamma.bf
./tests/hbltests/UnitTests/HBLCommands/If.bf
./tests/hbltests/UnitTests/HBLCommands/Integrate.bf
./tests/hbltests/UnitTests/HBLCommands/Inverse.bf
./tests/hbltests/UnitTests/HBLCommands/JSON.bf
./tests/hbltests/UnitTests/HBLCommands/Join.bf
./tests/hbltests/UnitTests/HBLCommands/LUDecompose.bf
./tests/hbltests/UnitTests/HBLCommands/LUSolve.bf
./tests/hbltests/UnitTests/HBLCommands/Lessthan.bf
./tests/hbltests/UnitTests/HBLCommands/Lessthanorequalto.bf
./tests/hbltests/UnitTests/HBLCommands/LnGamma.bf
./tests/hbltests/UnitTests/HBLCommands/LoadFunctionLibrary.bf
./tests/hbltests/UnitTests/HBLCommands/Log.bf
./tests/hbltests/UnitTests/HBLCommands/MAccess_bracket.bf
./tests/hbltests/UnitTests/HBLCommands/Max.bf
./tests/hbltests/UnitTests/HBLCommands/Min.bf
./tests/hbltests/UnitTests/HBLCommands/Model.bf
./tests/hbltests/UnitTests/HBLCommands/Percentsign.bf
./tests/hbltests/UnitTests/HBLCommands/Random.bf
./tests/hbltests/UnitTests/HBLCommands/ReplicateConstraint.bf
./tests/hbltests/UnitTests/HBLCommands/RequireVersion.bf
./tests/hbltests/UnitTests/HBLCommands/RerootTree.bf
./tests/hbltests/UnitTests/HBLCommands/Return.bf
./tests/hbltests/UnitTests/HBLCommands/Rows.bf
./tests/hbltests/UnitTests/HBLCommands/Simplex.bf
./tests/hbltests/UnitTests/HBLCommands/Simplify.bf
./tests/hbltests/UnitTests/HBLCommands/SimulateDataSet.bf
./tests/hbltests/UnitTests/HBLCommands/Sin.bf
./tests/hbltests/UnitTests/HBLCommands/Sqrt.bf
./tests/hbltests/UnitTests/HBLCommands/Sscanf.bf
./tests/hbltests/UnitTests/HBLCommands/Subtract.bf
./tests/hbltests/UnitTests/HBLCommands/Tan.bf
./tests/hbltests/UnitTests/HBLCommands/Time.bf
./tests/hbltests/UnitTests/HBLCommands/TipCount.bf
./tests/hbltests/UnitTests/HBLCommands/TipName.bf
./tests/hbltests/UnitTests/HBLCommands/Topology.bf
./tests/hbltests/UnitTests/HBLCommands/Transpose.bf
./tests/hbltests/UnitTests/HBLCommands/Tree.bf
./tests/hbltests/UnitTests/HBLCommands/Type.bf
./tests/hbltests/UnitTests/HBLCommands/While.bf
./tests/hbltests/UnitTests/HBLCommands/ZCDF.bf
./tests/hbltests/UnitTests/HBLCommands/assert.bf
./tests/hbltests/UnitTests/HBLCommands/break.bf
./tests/hbltests/UnitTests/HBLCommands/fscanf_fprintf.bf
./tests/hbltests/UnitTests/HBLCommands/include.bf
./tests/hbltests/UnitTests/HBLCommands/lfunction.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_iofunctions.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_math.bf
./tests/hbltests/UnitTests/HBLCommands/libv3_utilityfunctions.bf
./tests/hbltests/UnitTests/HBLCommands/namespace.bf
\n\n------------------------SUMMARY (Failed Tests)----------------------------\n
\n The following tests failed:
run_unit_tests.sh: line 35: ./tests/hbltests/UnitTests/HBLCommands/ExclamationPoint.bf: Permission denied
\n The output of the failed tests is below: \n
--------------------------------------------------------------
[Running COVERAGE TEST '!']
Error:
Failed to parse '"Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)"' with the following error: Constant expression inside `` did not evaluate to a string in the following context: '"<ERROR HERE>Failed to return 1 when ' in call to assert(!validPath==1, "Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)");
Function call stack
1 : assert(!validPath==1, "Failed to return 1 when evaluating `!` on a valid path string (/bin/bash)");
-------
2 : result=runTest();
-------
3 : runATest();
-------
Check errors.log for execution error details.
\n
\n\n------------------------SUMMARY (Failed Tests)----------------------------\n
1 Tests Failed
of 101 Tests Run
/bin/bash is not a valid path. bash should be always looked up with /usr/bin/env bash.
Dear @yurivict,
You are 100% right. The hardcoded /bin/bash should have never been there. I fixed this issue in the 2.5.43 tag by replacing /bin/bash with a path that's guaranteed to exist. Therefore, I am a bit puzzled as to why you are still seeing this issue.
Best, Sergei