Merge branch 'cifix' into 'dev'

.gitlab-ci.yml

README.md

install/environment.dev.yml

scripts/labkey_api.py

scripts/prepare_inputs.dict.tsv

scripts/prepare_inputs.py

scripts/requirements.txt

tests/test_alfa/expected_output.md5

...nd_R1_on_minus_antisense.pe.Aligned.sortedByCoord.out.bam

...1_on_minus_antisense.pe.Aligned.sortedByCoord.out.bam.bai

...ed_end_R1_on_minus_sense.pe.Aligned.sortedByCoord.out.bam

...nd_R1_on_minus_sense.pe.Aligned.sortedByCoord.out.bam.bai

...end_R1_on_plus_antisense.pe.Aligned.sortedByCoord.out.bam

...R1_on_plus_antisense.pe.Aligned.sortedByCoord.out.bam.bai

...red_end_R1_on_plus_sense.pe.Aligned.sortedByCoord.out.bam

...end_R1_on_plus_sense.pe.Aligned.sortedByCoord.out.bam.bai

...star_indexes/homo_sapiens/75/STAR_index/chrNameLength.txt

tests/test_alfa/test.sh

tests/test_scripts_prepare_inputs_labkey/expected_output.md5

tests/test_scripts_prepare_inputs_labkey/test.sh