diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 1b510c513e3260dc1e1b1a90afb8ca1ea5d76f3f..938bc1e55cd189436e025611904315c9677a420a 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -16,8 +16,8 @@ build: deploy: script: - singularity run 'docker://monachus/hugo' hugo - - singularity run 'docker://monachus/hugo' hugo deploy aws --maxDeletes -1 - - aws s3 ls s3://www.strandlab.net/ --recursive | awk '{cmd="aws s3api put-object-acl --acl bucket-owner-full-control --bucket www.strandlab.net --key "$4; system(cmd)}' + - ##singularity run 'docker://monachus/hugo' hugo deploy aws --maxDeletes -1 + - ##aws s3 ls s3://www.strandlab.net/ --recursive | awk '{cmd="aws s3api put-object-acl --acl bucket-owner-full-control --bucket www.strandlab.net --key "$4; system(cmd)}' artifacts: paths: - public diff --git a/data/repository/filters.json b/data/repository/filters.json index 633c958ee781bb83860c30e2bd984929e2f886f1..e948f0959834836eff25095990e3fb879c571bed 100644 --- a/data/repository/filters.json +++ b/data/repository/filters.json @@ -1,66 +1,66 @@ -[ - {"id": "disease", "parent": "#", "text": "Disease Phenotype", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "disease.d", "parent":"disease", "text": "Donor (normal)"}, - {"id": "disease.b", "parent":"disease", "text": "BPH"}, - {"id": "disease.c", "parent":"disease", "text": "Prostate Cancer"}, - {"id": "demographics", "parent": "#", "text": "Demographics", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "ethnicity", "parent":"demographics", "text": "Ethnicity", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "ethn.aa", "parent":"ethnicity", "text": "African American"}, - {"id": "ethn.as", "parent":"ethnicity", "text": "Asian"}, - {"id": "ethn.ca", "parent":"ethnicity", "text": "Caucasian"}, - {"id": "ethn.hi", "parent":"ethnicity", "text": "Hispanic"}, - {"id": "ethn.uk", "parent":"ethnicity", "text": "Unknown Ethnicity"}, - {"id": "age", "parent":"demographics", "text": "Age", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "age.40", "parent":"age", "text": "<40yo"}, - {"id": "age.50", "parent":"age", "text": "41-50yo"}, - {"id": "age.60", "parent":"age", "text": "51-60yo"}, - {"id": "age.70", "parent":"age", "text": "61-70yo"}, - {"id": "age.80", "parent":"age", "text": "71-80yo"}, - {"id": "age.90", "parent":"age", "text": "81-90yo"}, - {"id": "age.100", "parent":"age", "text": "91+yo"}, - {"id": "age.uk", "parent":"age", "text": "Unknown Age"}, - {"id": "clinical", "parent":"#", "text": "Clinical Features", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "bmi", "parent":"clinical", "text": "BMI", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "bmi.uw", "parent":"bmi", "text": "Underweight"}, - {"id": "bmi.nw", "parent":"bmi", "text": "Normal"}, - {"id": "bmi.ow", "parent":"bmi", "text": "Overweight"}, - {"id": "bmi.ob", "parent":"bmi", "text": "Obese"}, - {"id": "bmi.vo", "parent":"bmi", "text": "Very Obese"}, - {"id": "bmi.so", "parent":"bmi", "text": "Severely Obese"}, - {"id": "bmi.uk", "parent":"bmi", "text": "Unknown BMI"}, - {"id": "t2d", "parent":"clinical", "text": "Type 2 Diabetes", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "t2d.y", "parent":"t2d", "text": "Yes"}, - {"id": "t2d.n", "parent":"t2d", "text": "No"}, - {"id": "t2d.uk", "parent":"t2d", "text": "Unknown"}, - {"id": "bph", "parent":"clinical", "text": "BPH Features", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "bphsurgery", "parent":"bph", "text": "BPH Surgery", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "bphsurg.simp", "parent":"bphsurgery", "text": "Simple Prostatectomy"}, - {"id": "bphsurg.turp", "parent":"bphsurgery", "text": "TURP"}, - {"id": "bphsurg.uk", "parent":"bphsurgery", "text": "Unknown Surgery"}, - {"id": "5ari", "parent":"bph", "text": "5ARI", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "5ari.y", "parent":"5ari", "text": "Yes 5ARI"}, - {"id": "5ari.n", "parent":"5ari", "text": "No 5ARI"}, - {"id": "5ari.uk", "parent":"5ari", "text": "Unknown 5ARI"}, - {"id": "5aril", "parent":"bph", "text": "5ARI Length (months)", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "5aril.10", "parent":"5aril", "text": "<10mnths 5ARI"}, - {"id": "5aril.20", "parent":"5aril", "text": "10-20mnths 5ARI"}, - {"id": "5aril.30", "parent":"5aril", "text": "20+mnths 5ARI"}, - {"id": "5aril.uk", "parent":"5aril", "text": "Unknown 5ARI"}, - {"id": "5aril.na", "parent":"5aril", "text": "NA 5ARI"}, - {"id": "prostatevol", "parent":"clinical", "text": "Prostate Volume", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "prvol.low", "parent":"prostatevol", "text": "Low Volumne"}, - {"id": "prvol.med", "parent":"prostatevol", "text": "Medium Volume"}, - {"id": "prvol.hi", "parent":"prostatevol", "text": "High Volume"}, - {"id": "prvol.vhi", "parent":"prostatevol", "text": "Very High Volume"}, - {"id": "prvol.uk", "parent":"prostatevol", "text": "Unknown Volume"}, - {"id": "repo", "parent":"#", "text": "Repository", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "repo.pr", "parent":"repo", "text": "Prostate", "a_attr": { "class": "no_checkbox" }, "disabled": true}, - {"id": "repo.pr.cry", "parent":"repo.pr", "text": "Pr Cryopreserved Cells"}, - {"id": "repo.pr.ff", "parent":"repo.pr", "text": "Pr Flash Frozen Tissue"}, - {"id": "repo.pr.ffpe", "parent":"repo.pr", "text": "Pr FFPE"}, - {"id": "repo.pr.oct", "parent":"repo.pr", "text": "Pr OCT"}, - {"id": "repo.bl", "parent":"repo", "text": "Bladder"}, - {"id": "repo.sv", "parent":"repo", "text": "Seminal Vesicle"}, - {"id": "repo.vd", "parent":"repo", "text": "Vas Deferencec"}, - {"id": "repo.ut", "parent":"repo", "text": "Ureter"} +[ + {"id": "disease", "parent": "#", "text": "Disease Phenotype", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "disease.d", "parent":"disease", "text": "Donor (normal)"}, + {"id": "disease.b", "parent":"disease", "text": "BPH"}, + {"id": "disease.c", "parent":"disease", "text": "Prostate Cancer"}, + {"id": "demographics", "parent": "#", "text": "Demographics", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "ethnicity", "parent":"demographics", "text": "Ethnicity", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "ethn.aa", "parent":"ethnicity", "text": "African American"}, + {"id": "ethn.as", "parent":"ethnicity", "text": "Asian"}, + {"id": "ethn.ca", "parent":"ethnicity", "text": "Caucasian"}, + {"id": "ethn.hi", "parent":"ethnicity", "text": "Hispanic"}, + {"id": "ethn.uk", "parent":"ethnicity", "text": "Unknown Ethnicity"}, + {"id": "age", "parent":"demographics", "text": "Age", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "age.40", "parent":"age", "text": "<40yo"}, + {"id": "age.50", "parent":"age", "text": "41-50yo"}, + {"id": "age.60", "parent":"age", "text": "51-60yo"}, + {"id": "age.70", "parent":"age", "text": "61-70yo"}, + {"id": "age.80", "parent":"age", "text": "71-80yo"}, + {"id": "age.90", "parent":"age", "text": "81-90yo"}, + {"id": "age.100", "parent":"age", "text": "91+yo"}, + {"id": "age.uk", "parent":"age", "text": "Unknown Age"}, + {"id": "clinical", "parent":"#", "text": "Clinical Features", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "bmi", "parent":"clinical", "text": "BMI", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "bmi.uw", "parent":"bmi", "text": "Underweight"}, + {"id": "bmi.nw", "parent":"bmi", "text": "Normal"}, + {"id": "bmi.ow", "parent":"bmi", "text": "Overweight"}, + {"id": "bmi.ob", "parent":"bmi", "text": "Obese"}, + {"id": "bmi.vo", "parent":"bmi", "text": "Very Obese"}, + {"id": "bmi.so", "parent":"bmi", "text": "Severely Obese"}, + {"id": "bmi.uk", "parent":"bmi", "text": "Unknown BMI"}, + {"id": "t2d", "parent":"clinical", "text": "Type 2 Diabetes", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "t2d.y", "parent":"t2d", "text": "Yes"}, + {"id": "t2d.n", "parent":"t2d", "text": "No"}, + {"id": "t2d.uk", "parent":"t2d", "text": "Unknown"}, + {"id": "bph", "parent":"clinical", "text": "BPH Features", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "bphsurgery", "parent":"bph", "text": "BPH Surgery", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "bphsurg.simp", "parent":"bphsurgery", "text": "Simple Prostatectomy"}, + {"id": "bphsurg.turp", "parent":"bphsurgery", "text": "TURP"}, + {"id": "bphsurg.uk", "parent":"bphsurgery", "text": "Unknown Surgery"}, + {"id": "5ari", "parent":"bph", "text": "5ARI", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "5ari.y", "parent":"5ari", "text": "Yes 5ARI"}, + {"id": "5ari.n", "parent":"5ari", "text": "No 5ARI"}, + {"id": "5ari.uk", "parent":"5ari", "text": "Unknown 5ARI"}, + {"id": "5aril", "parent":"bph", "text": "5ARI Length (months)", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "5aril.10", "parent":"5aril", "text": "<10mnths 5ARI"}, + {"id": "5aril.20", "parent":"5aril", "text": "10-20mnths 5ARI"}, + {"id": "5aril.30", "parent":"5aril", "text": "20+mnths 5ARI"}, + {"id": "5aril.uk", "parent":"5aril", "text": "Unknown 5ARI"}, + {"id": "5aril.na", "parent":"5aril", "text": "NA 5ARI"}, + {"id": "prostatevol", "parent":"clinical", "text": "Prostate Volume", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "prvol.low", "parent":"prostatevol", "text": "Low Volumne"}, + {"id": "prvol.med", "parent":"prostatevol", "text": "Medium Volume"}, + {"id": "prvol.hi", "parent":"prostatevol", "text": "High Volume"}, + {"id": "prvol.vhi", "parent":"prostatevol", "text": "Very High Volume"}, + {"id": "prvol.uk", "parent":"prostatevol", "text": "Unknown Volume"}, + {"id": "repo", "parent":"#", "text": "Repository", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "repo.pr", "parent":"repo", "text": "Prostate", "a_attr": { "class": "no_checkbox" }, "disabled": true}, + {"id": "repo.pr.cry", "parent":"repo.pr", "text": "Pr Cryopreserved Cells"}, + {"id": "repo.pr.ff", "parent":"repo.pr", "text": "Pr Flash Frozen Tissue"}, + {"id": "repo.pr.ffpe", "parent":"repo.pr", "text": "Pr FFPE"}, + {"id": "repo.pr.oct", "parent":"repo.pr", "text": "Pr OCT"}, + {"id": "repo.bl", "parent":"repo", "text": "Bladder"}, + {"id": "repo.sv", "parent":"repo", "text": "Seminal Vesicle"}, + {"id": "repo.vd", "parent":"repo", "text": "Vas Deference"}, + {"id": "repo.ut", "parent":"repo", "text": "Ureter"} ] \ No newline at end of file