Files in sahilseth/flowr
Streamlining Design and Deployment of Complex Workflows
.Rbuildignore
.github/workflows/r-cmd-check.yml
.gitignore
.travis_bak.yml
.travis_bak2.yml
CONTRIBUTING.md
CRAN-RELEASE
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/check-args.R
R/check.R
R/class-def.R
R/conf.R
R/errors.R
R/fetch.r
R/generic.R
R/kill-flow.R
R/limit_runs.R
R/parse-jobids.R
R/plot.R
R/render-dependency.R
R/rerun.R
R/run.R
R/run_pipe_v2.R
R/rw-flow-details.R
R/setup.R
R/status.R
R/submit-flow.R
R/submit-job.R
R/submit-local.R
R/to-flow.R
R/to-flowdef.R
R/to-flowdet.R
R/to-flowmat.R
R/verbose.R
R/zz-create-jobs-mat.R
R/zz-db.R
R/zz-examples.R
R/zz-flow-code.R
R/zz-parse-resources.R
R/zz-test-queue.R
R/zzz.R
README.Rmd
README.md
TODO.md
cran-comments.md
docs/404.html
docs/CONTRIBUTING.html
docs/LICENSE-text.html
docs/TODO.html
docs/articles/files/googl.js
docs/articles/files/toy.png
docs/articles/flowr_install.html
docs/articles/flowr_install_files/header-attrs-2.7/header-attrs.js
docs/articles/flowr_overview.html
docs/articles/flowr_overview_files/figure-html/plot_abcd-1.png
docs/articles/flowr_overview_files/figure-html/plot_one_one-1.png
docs/articles/flowr_overview_files/figure-html/plotit-1.png
docs/articles/flowr_overview_files/header-attrs-2.7/header-attrs.js
docs/articles/flowr_tutorial.html
docs/articles/flowr_tutorial_files/figure-html/plot_skeleton_def-1.png
docs/articles/flowr_tutorial_files/figure-html/plot_tweaked_def-1.png
docs/articles/flowr_tutorial_files/header-attrs-2.7/header-attrs.js
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/check.html
docs/reference/check_args.html
docs/reference/create_jobs_mat.html
docs/reference/error.html
docs/reference/fetch.html
docs/reference/flow-1.png
docs/reference/flow.html
docs/reference/flowopts.html
docs/reference/generate_flow_code.html
docs/reference/get_resources.html
docs/reference/get_resources_lsf.html
docs/reference/get_unique_id.html
docs/reference/get_wds.html
docs/reference/index.html
docs/reference/job-1.png
docs/reference/job.html
docs/reference/kill.html
docs/reference/plot_flow-1.png
docs/reference/plot_flow-2.png
docs/reference/plot_flow-3.png
docs/reference/plot_flow.html
docs/reference/queue.html
docs/reference/replace_slots.html
docs/reference/rerun.html
docs/reference/run.html
docs/reference/run_pipe_v2.html
docs/reference/setup.html
docs/reference/status.html
docs/reference/submit_flow.html
docs/reference/submit_job.html
docs/reference/submit_run.html
docs/reference/test_queue.html
docs/reference/to_df.status.html
docs/reference/to_flow.html
docs/reference/to_flowdef-1.png
docs/reference/to_flowdef-2.png
docs/reference/to_flowdef.html
docs/reference/to_flowdet.html
docs/reference/to_flowmat.html
docs/reference/verbose.html
docs/reference/whisker_render.html
docs/reference/write_flow_details.html
flowr.Rproj
flowr_manual.pdf
flowr_pkg_ref.pdf
inst/CITATION
inst/conf/flowr.conf
inst/conf/local.sh
inst/conf/lsf.sh
inst/conf/moab.sh
inst/conf/sge.sh
inst/conf/slurm.sh
inst/conf/test.sh
inst/conf/torque.sh
inst/conf/torque_comm.sh
inst/extdata/plot_dims.xlsx
inst/extdata/test_cases/flow_def.tsv
inst/extdata/test_cases/flow_mat.tsv
inst/extdata/tests-sleep.Rmd
inst/extdata/tests.Rmd
inst/pipelines/README.md
inst/pipelines/abcd.def
inst/pipelines/abcd.tsv
inst/pipelines/fastq_bam_bwa.R
inst/pipelines/fastq_bam_bwa.conf
inst/pipelines/fastq_bam_bwa.def
inst/pipelines/sleep_pipe.R
inst/pipelines/sleep_pipe.def
inst/pipelines/sleep_pipe.pdf
inst/pipelines/sleep_pipe.tsv
inst/scripts/check_file_status.sh
inst/scripts/flowr
inst/scripts/flowr.v1
inst/scripts/show_linkage.R
man/check.Rd
man/check_args.Rd
man/create_jobs_mat.Rd
man/error.Rd
man/fetch.Rd
man/flow.Rd
man/flowopts.Rd
man/generate_flow_code.Rd
man/get_resources.Rd
man/get_resources_lsf.Rd
man/get_unique_id.Rd
man/get_wds.Rd
man/job.Rd
man/kill.Rd
man/plot_flow.Rd
man/queue.Rd
man/replace_slots.Rd
man/rerun.Rd
man/run.Rd
man/run_pipe_v2.Rd
man/setup.Rd
man/status.Rd
man/submit_flow.Rd
man/submit_job.Rd
man/submit_run.Rd
man/test_queue.Rd
man/to_df.status.Rd
man/to_flow.Rd
man/to_flowdef.Rd
man/to_flowdet.Rd
man/to_flowmat.Rd
man/verbose.Rd
man/whisker_render.Rd
man/write_flow_details.Rd
misc/.travis_20150920.yml
misc/.travis_20151002.yml
misc/.travis_20151012.yml
misc/build.R
misc/building_docs.Rmd
misc/deploy2_staticdocs.sh
misc/deploy_staticdocs.R
misc/deploy_staticdocs.sh
misc/example_fobjs/bam_mutect-tumor___normal-20160413-18-28-39-8MrS9tj7.rds
misc/example_fobjs/bam_mutect-tumor___normal-20160413-18-28-39-8MrS9tj7.tsv
misc/example_fobjs/flowr_aln_fqs-CGP-S03-E7AB-8AD9ACF7-T1-A2-J02-20170506-02-40-22-lTAxP5Eu.rds
misc/flowr_deps_20150715.png
misc/flowr_deps_red.pdf
misc/flowr_deps_red.png
misc/insert_drat.R
misc/linkage.Rmd
tests/README.md
tests/testthat.R
tests/testthat/test-cases.R
tests/testthat/test-checkargs.R
tests/testthat/test-plots.R
tests/testthat/test-toflow.R
vignettes/files/flow_def_columns.txt
vignettes/files/googl.js
vignettes/files/logo.png
vignettes/files/logo_black.png
vignettes/files/logo_blue.png
vignettes/files/logo_green.png
vignettes/files/logo_red.png
vignettes/files/platforms_supported.txt
vignettes/files/toy.png
vignettes/flowr_install.Rmd
vignettes/flowr_overview.Rmd
vignettes/flowr_tutorial.Rmd
