Clear checkpoint

[ODiogoSilva]

This PR adds a component specific option to remove temporary input files. This option prevents the resume functionality from being used in the workflow, but can drastically decrease the disk space requirements.

[codecov-io]

Codecov Report

Merging #132 into dev will decrease coverage by 0.13%.
The diff coverage is 14.28%.

@@            Coverage Diff             @@
##              dev     #132      +/-   ##
==========================================
- Coverage   38.68%   38.55%   -0.14%     
==========================================
  Files          59       59              
  Lines        5547     5577      +30     
==========================================
+ Hits         2146     2150       +4     
- Misses       3401     3427      +26

Impacted Files	Coverage Δ
flowcraft/generator/components/mapping.py	100% <ø> (ø)	⬆️
...raft/generator/components/reads_quality_control.py	100% <ø> (ø)	⬆️
flowcraft/generator/components/metagenomics.py	100% <ø> (ø)	⬆️
flowcraft/templates/trimmomatic.py	0% <0%> (ø)	⬆️
flowcraft/templates/metaspades.py	0% <0%> (ø)	⬆️
flowcraft/templates/spades.py	0% <0%> (ø)	⬆️
flowcraft/templates/megahit.py	0% <0%> (ø)	⬆️
flowcraft/generator/components/assembly.py	100% <100%> (ø)	⬆️
flowcraft/generator/components/typing.py	100% <100%> (ø)	⬆️
...wcraft/generator/components/assembly_processing.py	100% <100%> (ø)	⬆️
... and 1 more

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