nf-core/tools: Brass Walrus

Syncing Code refactoring to make the script more readable No travis build failure anymore on sync errors More verbose logging Template pipeline awsbatch work-dir checking moved to nextflow itself. Removed unsatisfiable check in main.nf template. Fixed markdown linting Tools CI testing now runs markdown lint on compiled template pipeline Migrated large portions of documentation to the nf-core website Removed Gitter references in .github/ directories for tools/ and pipeline template. Changed scrape_software_versions.py to output .csv file Added export_plots parameter to multiqc config Tools helper code Drop nf-core/rnaseq from blacklist.json to make template sync available Updated main help command to sort the subcommands in a more logical order Updated readme to describe the new nf-core launch command Fix bugs in nf-core download The latest release is now fetched by default if not specified Downloaded pipeline files are now properly executable. Fixed bugs in nf-core list Sorting now works again Output is partially coloured (better highlighting out of date pipelines) Improved documentation Fixed bugs in nf-core lint The order of conda channels is now correct, avoiding occasional erroneous errors that packages weren't found (#207) Add reporting of ignored errored process As a solution for #103