############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r TCGAbiolinks -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data TCGAbiolinks ### ############################################################################## ############################################################################## * checking for file 'TCGAbiolinks/DESCRIPTION' ... OK * preparing 'TCGAbiolinks': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... OK * checking for LF line-endings in source and make files and shell scripts * checking for empty or unneeded directories * building 'TCGAbiolinks_2.20.1.tar.gz' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-ACC/harmonized/Clinical/Clinical_Supplement/4612e74a-f374-459a-a14f-8cecdb1c14f8/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-ACC/harmonized/Clinical/Clinical_Supplement/4612e74a-f374-459a-a14f-8cecdb1c14f8/nationwidechildrens.org_clinical_radiation_acc.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/22656b71-476a-4b5f-9f3b-82afb29a34bc/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/22656b71-476a-4b5f-9f3b-82afb29a34bc/nationwidechildrens.org_biospecimen_portion_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/41fd4c6c-2932-4c6b-914f-7abaea9dc8a0/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/41fd4c6c-2932-4c6b-914f-7abaea9dc8a0/nationwidechildrens.org_ssf_tumor_samples_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/43569ab9-5a32-45ef-a07e-e93f45416a16/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/43569ab9-5a32-45ef-a07e-e93f45416a16/nationwidechildrens.org_biospecimen_shipment_portion_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/5907be67-69f6-4339-8264-952a2462bea5/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/5907be67-69f6-4339-8264-952a2462bea5/nationwidechildrens.org_ssf_normal_controls_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/950ee56c-df20-4b39-867e-c73f17d0f4f6/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/950ee56c-df20-4b39-867e-c73f17d0f4f6/nationwidechildrens.org_biospecimen_aliquot_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/a24d7574-e419-47ce-9293-b9b29f854a10/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/a24d7574-e419-47ce-9293-b9b29f854a10/nationwidechildrens.org_biospecimen_protocol_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/c10090b8-fa42-4e32-86a0-9dedceb5b605/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/c10090b8-fa42-4e32-86a0-9dedceb5b605/nationwidechildrens.org_biospecimen_slide_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/c5039e7e-14d8-4e59-ba20-0d3fa38b86df/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/c5039e7e-14d8-4e59-ba20-0d3fa38b86df/nationwidechildrens.org_biospecimen_sample_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/d0c967b5-78ee-4bc4-9493-3cbe44af1bf5/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/d0c967b5-78ee-4bc4-9493-3cbe44af1bf5/nationwidechildrens.org_biospecimen_analyte_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/edbb5de2-d0b5-4a07-a0e1-19e952a5117d/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Biospecimen/Biospecimen_Supplement/edbb5de2-d0b5-4a07-a0e1-19e952a5117d/nationwidechildrens.org_biospecimen_diagnostic_slides_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/0a40467f-9495-4c5b-b56e-3347a3ee0572/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/0a40467f-9495-4c5b-b56e-3347a3ee0572/nationwidechildrens.org_clinical_radiation_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/1e6b79ff-9787-4cbe-b19d-ebabb6b43589/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/1e6b79ff-9787-4cbe-b19d-ebabb6b43589/nationwidechildrens.org_clinical_drug_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/22f38342-3f1a-47e5-9025-c19719fa21d0/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/22f38342-3f1a-47e5-9025-c19719fa21d0/nationwidechildrens.org_clinical_follow_up_v1.5_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/403b5cef-8173-47c7-b56a-cc94dcfbb2e3/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/403b5cef-8173-47c7-b56a-cc94dcfbb2e3/nationwidechildrens.org_clinical_follow_up_v2.1_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/62d4515f-a30b-4b1a-b2dd-c8bf9476e803/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/62d4515f-a30b-4b1a-b2dd-c8bf9476e803/nationwidechildrens.org_clinical_follow_up_v4.0_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/8162d394-8b64-4da2-9f5b-d164c54b9608/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/8162d394-8b64-4da2-9f5b-d164c54b9608/nationwidechildrens.org_clinical_patient_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/a88c168e-4bba-4bd2-9c0c-77934444cc1c/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/a88c168e-4bba-4bd2-9c0c-77934444cc1c/nationwidechildrens.org_clinical_nte_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/a9baecf0-5549-4396-8805-a6d1681d11cd/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/a9baecf0-5549-4396-8805-a6d1681d11cd/nationwidechildrens.org_clinical_follow_up_v4.0_nte_brca.txt' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/f434b393-9e32-4ca2-aa1a-3b0de36b5ffe/' Warning in utils::tar(filepath, pkgname, compression = compression, compression_level = 9L, : storing paths of more than 100 bytes is not portable: 'TCGAbiolinks/vignettes/GDCdata/TCGA-BRCA/harmonized/Clinical/Clinical_Supplement/f434b393-9e32-4ca2-aa1a-3b0de36b5ffe/nationwidechildrens.org_clinical_omf_v4.0_brca.txt'