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feat: Add support for rust scripts (enabling directly integrated ad-h…
…oc robust high performance scripting) (#1053) * add support for rust scripts * add rust environment yaml * add missing files * some basic docs * clarify default dependencies * add functionality to handle cargo manifest * remove redundant continue * add some more rust script docs and restructure scripts docs * use NamedList type instead of HashMap * remove additional '--features', add indexmap/serde dependency+feature * update test-manifest.rs to use namedlist API aswell * add outer line doc testing and pin rust-script version * small fixes for rust outer doc test * format shell log string for rust-script * fmt * add missing test file * add missing rust script * replace serde-pickle with serde_json + json_typegen * fmt * only iter over positional items * fmt * add code to modify PATH, add functions for redirecting stdout, stderr, fmt and one stray fmt commit * use fully qualified names instead of use statements * update docs * remove print and todo * use ordered list instead * remove example TODO * move comment about R snakemake@source() function to the R section * update src comments * make log impl_iter and dont redirect rust-script stream * minor additions to the docs Co-authored-by: Johannes Köster <firstname.lastname@example.org> Co-authored-by: Michael Hall <email@example.com>
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Aug 12, 2021
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