snakemake fails with glpk-utils installed

[Krister Swenson]

Take the simplest Snakefile possible:

```
rule test:
  shell:
    'echo Hello'
```

Running snakemake on this file fails with error message:

GLPSOL--GLPK LP/MIP Solver 5.0
Parameter(s) specified in the command line:
 --cpxlp /tmp/11746-pulp.lp -o /tmp/11746-pulp.sol
Reading problem data from '/tmp/11746-pulp.lp'...
/tmp/11746-pulp.lp:5: missing constraint sense
CPLEX LP file processing error
Traceback (most recent call last):
  File "/usr/lib/python3/dist-packages/snakemake/__init__.py", line 643, in snakemake
    success = workflow.execute(
  File "/usr/lib/python3/dist-packages/snakemake/workflow.py", line 961, in execute
    success = scheduler.schedule()
  File "/usr/lib/python3/dist-packages/snakemake/scheduler.py", line 406, in schedule
    else self.job_selector_ilp(needrun)
  File "/usr/lib/python3/dist-packages/snakemake/scheduler.py", line 624, in job_selector_ilp
    prob.solve()
  File "/usr/lib/python3/dist-packages/pulp/pulp.py", line 1643, in solve
    status = solver.actualSolve(self, **kwargs)
  File "/usr/lib/python3/dist-packages/pulp/solvers.py", line 380, in actualSolve
    raise PulpSolverError("PuLP: Error while executing "+self.path)
pulp.solvers.PulpSolverError: PuLP: Error while executing glpsol

A workaround is to uninstall the package glpk-utils.

ProblemType: Bug
DistroRelease: Ubuntu 21.04
Package: snakemake 5.24.1-2
ProcVersionSignature: Ubuntu 5.11.0-17.18-generic 5.11.12
Uname: Linux 5.11.0-17-generic x86_64
NonfreeKernelModules: wl
ApportVersion: 2.20.11-0ubuntu65
Architecture: amd64
CasperMD5CheckResult: unknown
CurrentDesktop: ubuntu:GNOME
Date: Wed May 19 14:25:48 2021
InstallationDate: Installed on 2021-01-19 (119 days ago)
InstallationMedia: Ubuntu 20.10 "Groovy Gorilla" - Release amd64 (20201022)
PackageArchitecture: all
SourcePackage: snakemake
UpgradeStatus: Upgraded to hirsute on 2021-04-27 (22 days ago)

[Rebecca Palmer (rebecca-palmer)]

This may have been fixed: in Debian, snakemake still passes its tests if glpk-utils is installed.

[Krister Swenson (thekswenson)]

Your right... it seems to work now.

[Krister Swenson (thekswenson)]

Actually, the bug persists.