add missing dependencies for funannotate

[boegel]

(created using eb --new-pr)
requires:

• add local::lib extension to Perl 5.34.0 #17679
• {bio}[GCC/11.2.0] tRNAscan-SE v2.0.12 #17680
• {bio}[GCC/11.2.0] tantan v40 #17681
• {bio}[foss/2021b] CodingQuarry v2.0 #17682
• {bio}[GCC/11.2.0] FASTA v36.3.8i #17683
• {bio}[gompi/2021b] Proteinortho v6.2.3 w/ Python 3.9.6 #17684
• {bio}[foss/2021b] SignalP v6.0g w/ Python 3.9.6 #17685
• {bio}[foss/2021b] Trinity v2.15.1, BLAT v3.7, RSEM v1.3.3 w/ Python 3.9.6 #17686
• {bio}[GCC/11.2.0] SNAP v2.0.1 #17687
• {bio}[GCC/11.2.0] GlimmerHMM v3.0.4c #17688
• {bio}[GCCcore/11.2.0] trimAl v1.4.1 #17689

[boegelbot]

@boegel: Tests failed in GitHub Actions, see https://github.com/easybuilders/easybuild-easyconfigs/actions/runs/4659122663
Output from first failing test suite run:

ERROR: test_conflicts (test.easyconfigs.easyconfigs.EasyConfigTest)
Check whether any conflicts occur in software dependency graphs.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 327, in test_conflicts
    self.assertFalse(check_conflicts(self.ordered_specs, modules_tool(), check_inter_ec_conflicts=False),
  File "test/easyconfigs/easyconfigs.py", line 279, in ordered_specs
    EasyConfigTest.resolve_all_dependencies()
  File "test/easyconfigs/easyconfigs.py", line 217, in resolve_all_dependencies
    cls._parsed_easyconfigs, modules_tool(), retain_all_deps=True)
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 463, in resolve_dependencies
    raise_error_missing_deps(totally_missing, extra_msg="no easyconfig file or existing module found")
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 326, in raise_error_missing_deps
    raise EasyBuildError(error_msg)
EasyBuildError: 'Missing dependencies: CodingQuarry/2.0-foss-2021b, Trinity/2.15.1-foss-2021b, BLAT/3.7-foss-2021b, FASTA/36.3.8i-foss-2021b, GlimmerHMM/3.0.4c-foss-2021b, Proteinortho/6.2.3-foss-2021b, SignalP/6.0g-foss-2021b-fast, SNAP/2.0.1-foss-2021b, tRNAscan-SE/2.0.12-foss-2021b, tantan/40-foss-2021b, trimAl/1.4.1-foss-2021b (no easyconfig file or existing module found)'

======================================================================
ERROR: test_dep_graph (test.easyconfigs.easyconfigs.EasyConfigTest)
Unit test that builds a full dependency graph.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 314, in test_dep_graph
    dep_graph(fn, self.ordered_specs)
  File "test/easyconfigs/easyconfigs.py", line 279, in ordered_specs
    EasyConfigTest.resolve_all_dependencies()
  File "test/easyconfigs/easyconfigs.py", line 217, in resolve_all_dependencies
    cls._parsed_easyconfigs, modules_tool(), retain_all_deps=True)
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 463, in resolve_dependencies
    raise_error_missing_deps(totally_missing, extra_msg="no easyconfig file or existing module found")
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 326, in raise_error_missing_deps
    raise EasyBuildError(error_msg)
EasyBuildError: 'Missing dependencies: CodingQuarry/2.0-foss-2021b, Trinity/2.15.1-foss-2021b, BLAT/3.7-foss-2021b, FASTA/36.3.8i-foss-2021b, GlimmerHMM/3.0.4c-foss-2021b, Proteinortho/6.2.3-foss-2021b, SignalP/6.0g-foss-2021b-fast, SNAP/2.0.1-foss-2021b, tRNAscan-SE/2.0.12-foss-2021b, tantan/40-foss-2021b, trimAl/1.4.1-foss-2021b (no easyconfig file or existing module found)'

======================================================================
ERROR: test_dep_versions_per_toolchain_generation (test.easyconfigs.easyconfigs.EasyConfigTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "test/easyconfigs/easyconfigs.py", line 854, in test_dep_versions_per_toolchain_generation
    for ec in self.ordered_specs:
  File "test/easyconfigs/easyconfigs.py", line 279, in ordered_specs
    EasyConfigTest.resolve_all_dependencies()
  File "test/easyconfigs/easyconfigs.py", line 217, in resolve_all_dependencies
    cls._parsed_easyconfigs, modules_tool(), retain_all_deps=True)
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 463, in resolve_dependencies
    raise_error_missing_deps(totally_missing, extra_msg="no easyconfig file or existing module found")
  File "/opt/hostedtoolcache/Python/2.7.18/x64/lib/python2.7/site-packages/easybuild/tools/robot.py", line 326, in raise_error_missing_deps
    raise EasyBuildError(error_msg)
EasyBuildError: 'Missing dependencies: CodingQuarry/2.0-foss-2021b, Trinity/2.15.1-foss-2021b, BLAT/3.7-foss-2021b, FASTA/36.3.8i-foss-2021b, GlimmerHMM/3.0.4c-foss-2021b, Proteinortho/6.2.3-foss-2021b, SignalP/6.0g-foss-2021b-fast, SNAP/2.0.1-foss-2021b, tRNAscan-SE/2.0.12-foss-2021b, tantan/40-foss-2021b, trimAl/1.4.1-foss-2021b (no easyconfig file or existing module found)'

----------------------------------------------------------------------
Ran 16772 tests in 917.768s

FAILED (errors=3)
ERROR: Not all tests were successful

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[jfgrimm]

we have some easyconfigs for this in a private UoY repo; some extra dependencies we have:

RepeatMasker
RepeatModeler
PASApipeline
EVidenceModeler
BioPerl