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  • jovicic/covid-19-public-data
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.gitattributes
View file @ 321c16f9
......@@ -419,3 +419,25 @@ data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-25-2020.csv filter=lfs dif
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-26-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-24-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19-chile/covid19_chile_2020-04-19.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-27-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-28-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-29-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/04-30-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-01-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-02-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-03-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-04-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-05-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-07-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-06-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-08-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-09-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-10-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-11-2020.csv filter=lfs diff=lfs merge=lfs -text
data/distancing-metrics/** filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-12-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-13-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-14-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-15-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-16-2020.csv filter=lfs diff=lfs merge=lfs -text
data/covid-19_jhu-csse/csse_covid_19_daily_reports/05-17-2020.csv filter=lfs diff=lfs merge=lfs -text
.gitlab-ci.yml
View file @ 321c16f9
# renku: v1.dev20180723
variables:
GIT_STRATEGY: fetch
GIT_SSL_NO_VERIFY: "true"
GIT_SUBMODULE_STRATEGY: recursive
GIT_LFS_SKIP_SMUDGE: 1
.docker-before-script: &docker_before_script # This is an anchor
before_script:
- docker login -u gitlab-ci-token -p $CI_JOB_TOKEN http://$CI_REGISTRY
.git-before-script: &git_before_script
before_script:
- git config --global user.name "CR (covid cron)"
- git config --global user.email "beepbop@example.com"
- url_host=`git remote get-url origin | sed -e "s/https:\/\/gitlab-ci-token:.*@//g"`
- cd /tmp/
- git clone "https://gitlab-ci-token:${CI_PUSH_TOKEN}@${url_host}"
- cd covid-19-public-data
- git lfs install --local
- PATH=$PATH:~/.local/bin
stages:
- build
- periodic
- datasets-update
- notebooks-update
- finalize-update
image_build:
stage: build
image: docker:stable
except:
refs:
- schedules
before_script:
- docker login -u gitlab-ci-token -p $CI_JOB_TOKEN http://$CI_REGISTRY
- /^auto-update.*$/
- schedules
<<: *docker_before_script
script:
- CI_COMMIT_SHA_7=$(echo $CI_COMMIT_SHA | cut -c1-7)
- docker build --tag $CI_REGISTRY_IMAGE:$CI_COMMIT_SHA_7 .
......@@ -25,39 +40,30 @@ image_build:
tags:
- image-build
update_build:
update-build:
stage: build
image: docker:stable
only:
refs:
- schedules
before_script:
- docker login -u gitlab-ci-token -p $CI_JOB_TOKEN http://$CI_REGISTRY
- schedules
<<: *docker_before_script
script:
- docker build --tag $CI_REGISTRY_IMAGE:$CI_COMMIT_SHORT_SHA-update .
- docker push $CI_REGISTRY_IMAGE:$CI_COMMIT_SHORT_SHA-update
tags:
- image-build
update:
stage: periodic
datasets:
stage: datasets-update
image:
name: $CI_REGISTRY_IMAGE:$CI_COMMIT_SHORT_SHA-update
entrypoint: [""]
only:
refs:
- schedules
- schedules
<<: *git_before_script
script:
- git config --global user.name "CR (covid cron)"
- git config --global user.email "cramakri+covid-cron@ethz.ch"
- url_host=`git remote get-url origin | sed -e "s/https:\/\/gitlab-ci-token:.*@//g"`
- cd /tmp/
- git clone "https://gitlab-ci-token:${CI_TAG_UPLOAD_TOKEN}@${url_host}"
- cd covid-19-public-data
- git lfs install --local
- export BRANCH_NAME="update"_$(date -u +"%Y-%m-%d_%H-%M")
- PATH=$PATH:~/.local/bin
- export BRANCH_NAME=auto-update-datasets-${CI_COMMIT_SHORT_SHA}
- git checkout -b $BRANCH_NAME
- renku dataset update covid-19_jhu-csse
- renku dataset add covid-19_jhu-csse --force --source csse_covid_19_data/csse_covid_19_daily_reports https://github.com/CSSEGISandData/COVID-19.git
......@@ -67,8 +73,42 @@ update:
- renku dataset update covid-19-spain
- renku dataset update covid-19-us-nyt
- renku dataset add covid-19-ecdc -d covid-19-ecdc.csv https://opendata.ecdc.europa.eu/covid19/casedistribution/csv --force || true
- renku dataset add covid-19-chile -s data/*.csv -s data/covid19_chile.rds https://github.com/itoledor/coronavirus.git --force
- renku dataset add covidtracker https://ocgptweb.azurewebsites.net/CSVDownload -d covidtracker.csv --force
- renku dataset add covid-19-chile -s data/*.csv -s data/covid19_chile.rds https://github.com/itoledor/coronavirus.git --force || true
- renku dataset add covidtracker https://ocgptweb.azurewebsites.net/CSVDownload -d covidtracker.csv --force || true
- renku rerun data/covidtracking/states-metadata.json data/covidtracking/states-daily.json
- renku run papermill -p out_folder ./data/distancing-metrics/ --inject-paths notebooks/process/download-distancing-data.ipynb runs/download-distancing-data.runs.ipynb
- git push --set-upstream origin $BRANCH_NAME
notebooks:
stage: notebooks-update
image:
name: $CI_REGISTRY_IMAGE:$CI_COMMIT_SHORT_SHA-update
entrypoint: [""]
only:
refs:
- schedules
<<: *git_before_script
script:
- export BRANCH_NAME=auto-update-notebooks-${CI_COMMIT_SHORT_SHA}
- git checkout auto-update-datasets-${CI_COMMIT_SHORT_SHA}
- git checkout -b $BRANCH_NAME
- renku update --with-siblings
- git push --set-upstream origin $BRANCH_NAME
finalize:
stage: finalize-update
image:
name: $CI_REGISTRY_IMAGE:$CI_COMMIT_SHORT_SHA-update
entrypoint: [""]
only:
- schedules
<<: *git_before_script
when: always
script:
- export BRANCH_NAME="auto-update"_$(date -u +"%Y-%m-%d_%H-%M")
- git checkout auto-update-notebooks-${CI_COMMIT_SHORT_SHA} || git checkout auto-update-datasets-${CI_COMMIT_SHORT_SHA}
- git rev-parse --abbrev-ref HEAD
- git checkout -b $BRANCH_NAME
- git push origin --delete auto-update-notebooks-${CI_COMMIT_SHORT_SHA} || true
- git push origin --delete auto-update-datasets-${CI_COMMIT_SHORT_SHA} || true
- git push origin $BRANCH_NAME
.renku/datasets/286c58b1-dbbc-4caa-a23a-fcb001d5ac51/metadata.yml
View file @ 321c16f9
......@@ -151,7 +151,7 @@ _project:
name: Chandrasekhar Ramakrishnan
name: covid-19-dashboard
updated: '2020-03-11T21:43:12.736000+00:00'
version: '3'
version: '4'
based_on: null
created: '2020-03-19T00:31:17.209963+00:00'
creator:
......@@ -172,7 +172,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/5d77bbb3d92723a71c34da3e93460c1d98e4a189/data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.json
_label: data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.json@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.json@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -199,7 +199,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/7470ab0daaaab0518ae7aa8cc71fd87d5c33ada5/dati-json/dpc-covid19-ita-andamento-nazionale.json
_label: dati-json/dpc-covid19-ita-andamento-nazionale.json@aebce1523cdfce03b4b26ab0adc61789f8881c16
_label: dati-json/dpc-covid19-ita-andamento-nazionale.json@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:45:32.448526+00:00'
based_on: null
......@@ -227,7 +227,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/b69963509326683ca9ee686792fd9735111dc5ef/data/covid-19-italy/dpc-covid19-ita-province.json
_label: data/covid-19-italy/dpc-covid19-ita-province.json@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-province.json@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -254,7 +254,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/71b44ac1987457c16a2af5466eeb96c02f45020f/dati-json/dpc-covid19-ita-province.json
_label: dati-json/dpc-covid19-ita-province.json@aebce1523cdfce03b4b26ab0adc61789f8881c16
_label: dati-json/dpc-covid19-ita-province.json@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:45:51.627833+00:00'
based_on: null
......@@ -282,7 +282,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/f7fc43ab3c49beaa0c73b1f7f4e421b5163f0add/data/covid-19-italy/dpc-covid19-ita-regioni.json
_label: data/covid-19-italy/dpc-covid19-ita-regioni.json@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-regioni.json@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -309,7 +309,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/71b44ac1987457c16a2af5466eeb96c02f45020f/dati-json/dpc-covid19-ita-regioni.json
_label: dati-json/dpc-covid19-ita-regioni.json@aebce1523cdfce03b4b26ab0adc61789f8881c16
_label: dati-json/dpc-covid19-ita-regioni.json@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:46:24.163477+00:00'
based_on: null
......@@ -337,7 +337,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/214fa7d617f2957a734045fba3c01cf145af6649/data/covid-19-italy/dpc-covid19-ita-province.csv
_label: data/covid-19-italy/dpc-covid19-ita-province.csv@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-province.csv@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -364,7 +364,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/8395f2eb33233e2d5785f0c248177263c105cf73/dati-province/dpc-covid19-ita-province.csv
_label: dati-province/dpc-covid19-ita-province.csv@a134bf51c5201c9bb43dca306a4cf1fce4b91050
_label: dati-province/dpc-covid19-ita-province.csv@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:46:47.013799+00:00'
based_on: null
......@@ -392,7 +392,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/8a04a14a3682521eff2bb0814755a2317f926dce/data/covid-19-italy/dpc-covid19-ita-regioni.csv
_label: data/covid-19-italy/dpc-covid19-ita-regioni.csv@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-regioni.csv@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -419,7 +419,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/c6c0d46c82068c1439857e63f871bae1fda5f92d/dati-regioni/dpc-covid19-ita-regioni.csv
_label: dati-regioni/dpc-covid19-ita-regioni.csv@aebce1523cdfce03b4b26ab0adc61789f8881c16
_label: dati-regioni/dpc-covid19-ita-regioni.csv@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:47:00.393956+00:00'
based_on: null
......@@ -447,7 +447,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/2f28b89c0b8580175181291e152ec03ad8d87a51/data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.csv
_label: data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.csv@12b330d1149966093b1b2cf4d21290535fed251a
_label: data/covid-19-italy/dpc-covid19-ita-andamento-nazionale.csv@f6e56702f31404a14176d39075bde312c0cfde24
_project:
'@type':
- prov:Location
......@@ -474,7 +474,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/7470ab0daaaab0518ae7aa8cc71fd87d5c33ada5/dati-andamento-nazionale/dpc-covid19-ita-andamento-nazionale.csv
_label: dati-andamento-nazionale/dpc-covid19-ita-andamento-nazionale.csv@aebce1523cdfce03b4b26ab0adc61789f8881c16
_label: dati-andamento-nazionale/dpc-covid19-ita-andamento-nazionale.csv@fb570da4b201e606d0ff976311395f078c4828a2
_project: null
added: '2020-03-19T10:47:15.130679+00:00'
based_on: null
......
.renku/datasets/4de0e2e6-c748-4aaf-a2ac-4a3fb0257ed1/metadata.yml
View file @ 321c16f9
......@@ -151,7 +151,7 @@ _project:
name: Chandrasekhar Ramakrishnan
name: covid-19-dashboard
updated: '2020-03-11T21:43:12.736000+00:00'
version: '3'
version: '4'
created: '2020-03-25T22:34:09.082660+00:00'
creator:
- '@type':
......@@ -171,7 +171,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/deee6e09be393f17dfcb1843d330e20c707c0ef1/data/covid-19-spain/nacional_covid19.csv
_label: data/covid-19-spain/nacional_covid19.csv@be26ac0302055287b458ed8a3111e801404f6c3e
_label: data/covid-19-spain/nacional_covid19.csv@0ed16bccaf1b95b11cdcc047aefcd7d65ab3a9c3
_project:
'@type':
- prov:Location
......@@ -198,7 +198,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/58d96d8ce648eefd56c70bfd5349b308bf11420a/COVID 19/nacional_covid19.csv
_label: COVID 19/nacional_covid19.csv@08d5ae5aa56e7800bc99e48a8739b809c2adf375
_label: COVID 19/nacional_covid19.csv@f01de991fb5502067e8a4982ce6198b0bad305d3
_project: null
added: '2020-03-26T16:21:45.569123+00:00'
based_on: null
......@@ -289,7 +289,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/deee6e09be393f17dfcb1843d330e20c707c0ef1/data/covid-19-spain/ccaa_covid19_altas.csv
_label: data/covid-19-spain/ccaa_covid19_altas.csv@be26ac0302055287b458ed8a3111e801404f6c3e
_label: data/covid-19-spain/ccaa_covid19_altas.csv@0ed16bccaf1b95b11cdcc047aefcd7d65ab3a9c3
_project:
'@type':
- prov:Location
......@@ -316,7 +316,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/7d723ea87a847a4d98389f3d7f8c8e5ecf99b39e/COVID 19/ccaa_covid19_altas.csv
_label: COVID 19/ccaa_covid19_altas.csv@087d0f659ec528fe6e46da99ea8f6d092cc273ad
_label: COVID 19/ccaa_covid19_altas.csv@f280abaf99d59c1b5d876205e4c7dff0a5f51395
_project: null
added: '2020-03-26T16:21:45.612885+00:00'
based_on: null
......@@ -371,7 +371,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/deee6e09be393f17dfcb1843d330e20c707c0ef1/data/covid-19-spain/ccaa_covid19_fallecidos.csv
_label: data/covid-19-spain/ccaa_covid19_fallecidos.csv@be26ac0302055287b458ed8a3111e801404f6c3e
_label: data/covid-19-spain/ccaa_covid19_fallecidos.csv@0ed16bccaf1b95b11cdcc047aefcd7d65ab3a9c3
_project:
'@type':
- prov:Location
......@@ -398,7 +398,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://github.com/blob/7d723ea87a847a4d98389f3d7f8c8e5ecf99b39e/COVID 19/ccaa_covid19_fallecidos.csv
_label: COVID 19/ccaa_covid19_fallecidos.csv@99adec04ba661369a35326d77d199496a4dce353
_label: COVID 19/ccaa_covid19_fallecidos.csv@f280abaf99d59c1b5d876205e4c7dff0a5f51395
_project: null
added: '2020-03-26T16:21:45.661075+00:00'
based_on: null
......@@ -453,7 +453,7 @@ files:
- schema:DigitalDocument
- wfprov:Artifact
_id: https://renkulab.io/blob/deee6e09be393f17dfcb1843d330e20c707c0ef1/data/covid-19-spain/ccaa_covid19_uci.csv
_label: data/covid-19-spain/ccaa_covid19_uci.csv@be26ac0302055287b458ed8a3111e801404f6c3e
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based_on: null
creator:
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based_on: null
creator:
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based_on: null
creator:
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based_on: null
creator:
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......@@ -1161,7 +1161,7 @@ files:
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based_on: null
creator:
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......@@ -1225,7 +1225,7 @@ files:
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based_on: null
creator:
- '@type':
......@@ -1289,7 +1289,7 @@ files:
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added: '2020-04-27T07:24:29.586599+00:00'
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based_on: null
creator:
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......@@ -1353,7 +1353,7 @@ files:
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based_on: null
creator:
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......@@ -1417,7 +1417,7 @@ files:
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added: '2020-04-27T07:24:30.086298+00:00'
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based_on: null
creator:
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......@@ -1481,7 +1481,7 @@ files:
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based_on: null
creator:
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......@@ -1545,7 +1545,7 @@ files:
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based_on: null
creator:
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......@@ -1609,7 +1609,7 @@ files:
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added: '2020-04-27T07:24:29.180636+00:00'
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based_on: null
creator:
- '@type':
......@@ -1673,7 +1673,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-29.csv
_label: data/covid19_chile_2020-03-29.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.268273+00:00'
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based_on: null
creator:
- '@type':
......@@ -1737,7 +1737,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-03.csv
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added: '2020-04-27T07:24:30.069730+00:00'
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based_on: null
creator:
- '@type':
......@@ -1801,7 +1801,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-31.csv
_label: data/covid19_chile_2020-03-31.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
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added: '2020-04-27T07:24:30.146039+00:00'
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based_on: null
creator:
- '@type':
......@@ -1865,7 +1865,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-30.csv
_label: data/covid19_chile_2020-03-30.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.891470+00:00'
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based_on: null
creator:
- '@type':
......@@ -1929,7 +1929,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-25.csv
_label: data/covid19_chile_2020-03-25.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.911162+00:00'
added: '2020-04-29T07:26:18.700773+00:00'
based_on: null
creator:
- '@type':
......@@ -1993,7 +1993,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-26.csv
_label: data/covid19_chile_2020-03-26.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:30.124456+00:00'
added: '2020-04-29T07:26:19.688023+00:00'
based_on: null
creator:
- '@type':
......@@ -2057,7 +2057,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-27.csv
_label: data/covid19_chile_2020-03-27.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.633794+00:00'
added: '2020-04-29T07:26:20.193105+00:00'
based_on: null
creator:
- '@type':
......@@ -2121,7 +2121,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-02.csv
_label: data/covid19_chile_2020-04-02.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:30.010223+00:00'
added: '2020-04-29T07:26:19.130916+00:00'
based_on: null
creator:
- '@type':
......@@ -2185,7 +2185,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-03-28.csv
_label: data/covid19_chile_2020-03-28.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.993587+00:00'
added: '2020-04-29T07:26:19.883518+00:00'
based_on: null
creator:
- '@type':
......@@ -2249,7 +2249,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-01.csv
_label: data/covid19_chile_2020-04-01.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.403217+00:00'
added: '2020-04-29T07:26:18.667857+00:00'
based_on: null
creator:
- '@type':
......@@ -2313,7 +2313,7 @@ files:
_id: https://github.com/blob/ff0e6f05970288f515c8d3df5d185b58cc0bccde/data/covid19_chile_2020-03-26_tests.csv
_label: data/covid19_chile_2020-03-26_tests.csv@ff0e6f05970288f515c8d3df5d185b58cc0bccde
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added: '2020-04-27T07:24:29.312237+00:00'
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based_on: null
creator:
- '@type':
......@@ -2377,7 +2377,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-04.csv
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based_on: null
creator:
- '@type':
......@@ -2441,7 +2441,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-05.csv
_label: data/covid19_chile_2020-04-05.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.952897+00:00'
added: '2020-04-29T07:26:19.356834+00:00'
based_on: null
creator:
- '@type':
......@@ -2505,7 +2505,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-06.csv
_label: data/covid19_chile_2020-04-06.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
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added: '2020-04-27T07:24:30.208971+00:00'
added: '2020-04-29T07:26:19.388214+00:00'
based_on: null
creator:
- '@type':
......@@ -2569,7 +2569,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-07.csv
_label: data/covid19_chile_2020-04-07.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.675139+00:00'
added: '2020-04-29T07:26:19.790183+00:00'
based_on: null
creator:
- '@type':
......@@ -2633,7 +2633,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-08.csv
_label: data/covid19_chile_2020-04-08.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.566592+00:00'
added: '2020-04-29T07:26:19.170502+00:00'
based_on: null
creator:
- '@type':
......@@ -2697,7 +2697,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-09.csv
_label: data/covid19_chile_2020-04-09.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.779076+00:00'
added: '2020-04-29T07:26:20.122693+00:00'
based_on: null
creator:
- '@type':
......@@ -2761,7 +2761,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-12.csv
_label: data/covid19_chile_2020-04-12.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.522847+00:00'
added: '2020-04-29T07:26:20.260171+00:00'
based_on: null
creator:
- '@type':
......@@ -2825,7 +2825,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-10.csv
_label: data/covid19_chile_2020-04-10.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.932049+00:00'
added: '2020-04-29T07:26:19.957438+00:00'
based_on: null
creator:
- '@type':
......@@ -2889,7 +2889,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-11.csv
_label: data/covid19_chile_2020-04-11.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.820110+00:00'
added: '2020-04-29T07:26:19.482762+00:00'
based_on: null
creator:
- '@type':
......@@ -2953,7 +2953,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-14.csv
_label: data/covid19_chile_2020-04-14.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.972885+00:00'
added: '2020-04-29T07:26:18.771749+00:00'
based_on: null
creator:
- '@type':
......@@ -3017,7 +3017,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-13.csv
_label: data/covid19_chile_2020-04-13.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:30.049712+00:00'
added: '2020-04-29T07:26:18.736314+00:00'
based_on: null
creator:
- '@type':
......@@ -3081,7 +3081,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-15.csv
_label: data/covid19_chile_2020-04-15.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.335958+00:00'
added: '2020-04-29T07:26:19.560877+00:00'
based_on: null
creator:
- '@type':
......@@ -3145,7 +3145,7 @@ files:
_id: https://github.com/blob/545a8bbe11258f6ffe7324a0c32577cb28ecd44c/data/covid19_chile_2020-04-16.csv
_label: data/covid19_chile_2020-04-16.csv@545a8bbe11258f6ffe7324a0c32577cb28ecd44c
_project: null
added: '2020-04-27T07:24:29.431056+00:00'
added: '2020-04-29T07:26:18.912732+00:00'
based_on: null
creator:
- '@type':
......@@ -3209,7 +3209,7 @@ files:
_id: https://github.com/blob/08ce9dcefeb0586ef4331f000f9fec51b42e7ae2/data/covid19_chile_2020-04-18.csv
_label: data/covid19_chile_2020-04-18.csv@08ce9dcefeb0586ef4331f000f9fec51b42e7ae2
_project: null
added: '2020-04-27T07:24:29.290190+00:00'
added: '2020-04-29T07:26:19.030770+00:00'
based_on: null
creator:
- '@type':
......@@ -3273,7 +3273,7 @@ files:
_id: https://github.com/blob/08ce9dcefeb0586ef4331f000f9fec51b42e7ae2/data/covid19_chile_2020-04-17.csv
_label: data/covid19_chile_2020-04-17.csv@08ce9dcefeb0586ef4331f000f9fec51b42e7ae2
_project: null
added: '2020-04-27T07:24:29.546565+00:00'
added: '2020-04-29T07:26:18.804666+00:00'
based_on: null
creator:
- '@type':
......@@ -3313,7 +3313,7 @@ files:
'@type':
- prov:Location
- schema:Project
_id: https://renkulab.io/projects/covid-19/covid-19-public-data
_id: https://localhost/projects/cramakri/covid-19-dashboard
created: '2020-03-11T21:43:12.736000+00:00'
creator:
'@type':
......@@ -3337,7 +3337,7 @@ files:
_id: https://github.com/blob/08ce9dcefeb0586ef4331f000f9fec51b42e7ae2/data/covid19_chile_2020-04-19.csv
_label: data/covid19_chile_2020-04-19.csv@08ce9dcefeb0586ef4331f000f9fec51b42e7ae2
_project: null
added: '2020-04-27T07:24:30.189323+00:00'
added: '2020-04-29T07:26:19.519583+00:00'
based_on: null
creator:
- '@type':
......
.renku/metadata.yml
View file @ 321c16f9
......@@ -37,4 +37,4 @@ creator:
name: Chandrasekhar Ramakrishnan
name: covid-19-dashboard
updated: '2020-03-11T21:43:12.736000+00:00'
version: '3'
version: '4'
.renku/workflow/0308e2c322734725b07608fbaf75dca6.cwl 0 → 100644
View file @ 321c16f9
class: Workflow
cwlVersion: v1.0
hints: []
inputs:
input_1:
default: out_folder
streamable: false
type: string
input_2:
default: data/covidtracking
streamable: false
type: string
input_3:
default:
class: File
path: ../../notebooks/process/download-covidtracking-data.ipynb
streamable: false
type: File
input_4:
default: runs/download-covidtracking-data.runs.ipynb
streamable: false
type: string
input_5:
default: states-metadata.json
streamable: false
type: string
input_6:
default: states-daily.json
streamable: false
type: string
outputs:
output_0:
outputSource: step_1/output_1
streamable: false
type: Directory
output_2:
outputSource: step_1/output_0
streamable: false
type: File
requirements: []
steps:
step_1:
in:
input_1: input_1
input_2: input_2
input_3: input_3
input_4: input_4
out:
- output_1
- output_0
run: a17d560c41a54f5aa307ce5f3c5effe5_papermill.cwl
step_2:
in:
filename: input_5
input_directory: step_1/output_1
out:
- output_file
run:
arguments: []
baseCommand:
- 'true'
class: CommandLineTool
cwlVersion: v1.0
hints: []
inputs:
filename:
default: states-metadata.json
streamable: false
type: string
input_directory:
streamable: false
type: Directory
outputs:
output_file:
outputBinding:
glob: $(inputs.filename)
streamable: false
type: File
permanentFailCodes: []
requirements:
- &id001
class: InlineJavascriptRequirement
- &id002
class: InitialWorkDirRequirement
listing: $(inputs.input_directory.listing)
successCodes: []
temporaryFailCodes: []
step_3:
in:
filename: input_6
input_directory: step_1/output_1
out:
- output_file
run:
arguments: []
baseCommand:
- 'true'
class: CommandLineTool
cwlVersion: v1.0
hints: []
inputs:
filename:
default: states-daily.json
streamable: false
type: string
input_directory:
streamable: false
type: Directory
outputs:
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.renku/workflow/1a75ae362bb2411782043600520835db.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/27a7b089733d4af993a4077829c5d7af.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/2e8a319f9ee44589be8c107d5e902121.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/3a0e3680e8fe4f35b57748364c2ba923.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/3a1643ef38494bca9c9e7a94f7c41c4f.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/3fbb0ffac9e04d7e8c71c5b893678788.cwl 0 → 100644
View file @ 321c16f9
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.renku/workflow/4c9710319d5e44a7b6d26fa56a3a4772_papermill.cwl 0 → 100644
View file @ 321c16f9
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input_4:
default: runs/download-distancing-data.runs.ipynb
inputBinding:
position: 4
separate: true
shellQuote: true
streamable: false
type: string
outputs:
output_0:
outputBinding:
glob: $(inputs.input_4)
streamable: false
type: File
output_1:
outputBinding:
glob: $(inputs.input_2)
streamable: false
type: Directory
permanentFailCodes: []
requirements:
- class: InlineJavascriptRequirement
- class: InitialWorkDirRequirement
listing:
- entry: '$({"listing": [], "class": "Directory"})'
entryname: runs
writable: true
- entry: '$({"listing": [], "class": "Directory"})'
entryname: data/distancing-metrics
writable: true
- entry: $(inputs.input_3)
entryname: notebooks/process/download-distancing-data.ipynb
writable: false
successCodes: []
temporaryFailCodes: []
.renku/workflow/544cca94bd39452da391b9028fa1ddd1.cwl 0 → 100644
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.renku/workflow/560b591f08b149eaab549f23e121daca.cwl 0 → 100644
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