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> library(testthat)
> library(cBioPortalData)
Loading required package: AnVIL
Loading required package: dplyr

Attaching package: 'dplyr'

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

Loading required package: AnVILBase
Loading required package: MultiAssayExperiment
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'matrixStats'

The following object is masked from 'package:dplyr':

    count


Attaching package: 'MatrixGenerics'

The following objects are masked from 'package:matrixStats':

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: 'generics'

The following object is masked from 'package:dplyr':

    explain

The following objects are masked from 'package:base':

    as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
    setequal, union


Attaching package: 'BiocGenerics'

The following object is masked from 'package:dplyr':

    combine

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
    mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
    rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
    unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:dplyr':

    first, rename

The following object is masked from 'package:utils':

    findMatches

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

The following objects are masked from 'package:dplyr':

    collapse, desc, slice

Loading required package: Seqinfo
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Attaching package: 'Biobase'

The following object is masked from 'package:MatrixGenerics':

    rowMedians

The following objects are masked from 'package:matrixStats':

    anyMissing, rowMedians

> 
> test_check("cBioPortalData")
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
trying URL 'https://datahub.assets.cbioportal.org/brca_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/brca_msk_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/gist_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/gist_msk_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/lms_msk_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/lms_msk_2024.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/ccrcc_sjuh_2023.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/ccrcc_sjuh_2023.tar.gz'
Error in TCGAutils::uniformBuilds(x[[ncbi]]) : 
  Frequency of NA values higher than the cutoff tolerance
trying URL 'https://datahub.assets.cbioportal.org/pancan_pdmr_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/pancan_pdmr_2025.tar.gz'
Error in strsplit(hugos, "|", TRUE) : non-character argument
trying URL 'https://datahub.assets.cbioportal.org/soft_tissue_myod1_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/soft_tissue_myod1_msk_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/prad_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/prad_msk_2025.tar.gz'
Error in validObject(.Object) : invalid class "ExperimentList" object: 
    ExperimentList elements must be named
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in validObject(.Object) : invalid class "ExperimentList" object: 
    ExperimentList elements must be named
trying URL 'https://datahub.assets.cbioportal.org/ovarian_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/ovarian_msk_2025.tar.gz'
Error in TCGAutils::uniformBuilds(x[[ncbi]]) : 
  Frequency of NA values higher than the cutoff tolerance
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
trying URL 'https://datahub.assets.cbioportal.org/brca_aurora_2023.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/brca_aurora_2023.tar.gz'
Error in strsplit(hugos, "|", TRUE) : non-character argument
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
trying URL 'https://datahub.assets.cbioportal.org/breast_msk_cfdna_2026.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/breast_msk_cfdna_2026.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/hdcn_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/hdcn_msk_2025.tar.gz'
aml_target_gdc/data_mrna_seq_fpkm.txt: Write failed
aml_target_gdc/data_gene_panel_matrix.txt: Write to restore size failed
aml_target_gdc/data_mrna_seq_fpkm_zscores_ref_all_samples.txt: Write to restore size failed




Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
pancan_pcawg_2020/data_mrna_seq_fpkm_zscores_ref_all_samples.txt: Write failed
pancan_pcawg_2020/data_mirna_zscores.txt: Can't create 'pancan_pcawg_2020/data_mirna_zscores.txt'
pancan_pcawg_2020/data_mutational_signatures_contribution_ID.txt: Can't create 'pancan_pcawg_2020/data_mutational_signatures_contribution_ID.txt'
pancan_pcawg_2020/data_resource_sample.txt: Can't create 'pancan_pcawg_2020/data_resource_sample.txt'
pancan_pcawg_2020/data_resource_definition.txt: Can't create 'pancan_pcawg_2020/data_resource_definition.txt'
pancan_pcawg_2020/data_clinical_sample.txt: Write failed
pancan_pcawg_2020/meta_study.txt: Can't create 'pancan_pcawg_2020/meta_study.txt'
pancan_pcawg_2020/data_mutational_signatures_contribution_SBS.txt: Write failed
pancan_pcawg_2020/data_mutational_signatures_contribution_DBS.txt: Can't create 'pancan_pcawg_2020/data_mutational_signatures_contribution_DBS.txt'
pancan_pcawg_2020/data_mutational_signatures_counts_ID.txt: Can't create 'pancan_pcawg_2020/data_mutational_signatures_counts_ID.txt'
pancan_pcawg_2020/data_mutational_signatures_counts_SBS.txt: Can't create 'pancan_pcawg_2020/data_mutational_signatures_counts_SBS.txt'
pancan_pcawg_2020/data_mirna.txt: Can't create 'pancan_pcawg_2020/data_mirna.txt'
pancan_pcawg_2020/data_mutations.txt: Can't create 'pancan_pcawg_2020/data_mutations.txt'
pancan_pcawg_2020/data_timeline_status.txt: Can't create 'pancan_pcawg_2020/data_timeline_status.txt'
pancan_pcawg_2020/data_gene_panel_matrix.txt: Can't create 'pancan_pcawg_2020/data_gene_panel_matrix.txt'
tar: Error exit delayed from previous errors.
Error in cbioportal2clinicaldf(clinicalfiles) : 
  object 'clindata' not found
Error in validObject(.Object) : invalid class "ExperimentList" object: 
    Non-unique names provided
trying URL 'https://datahub.assets.cbioportal.org/bladder_msk_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/bladder_msk_2024.tar.gz'
ccle_broad_2019/data_mutations.txt: Write failed
ccle_broad_2019/data_cna.txt: Write to restore size failed
ccle_broad_2019/data_drug_treatment_auc.txt: Write to restore size failed
ccle_broad_2019/data_gene_panel_matrix.txt: Write to restore size failed
ccle_broad_2019/data_clinical_patient.txt: Write to restore size failed
ccle_broad_2019/data_mrna_seq_rpkm_zscores_ref_diploid_samples.txt: Write to restore size failed
ccle_broad_2019/data_protein_quantification_zscores.txt: Write to restore size failed
ccle_broad_2019/data_protein_quantification.txt: Write to restore size failed
ccle_broad_2019/data_sv.txt: Write to restore size failed
ccle_broad_2019/data_drug_treatment_ic50.txt: Write to restore size failed
ccle_broad_2019/data_cna_hg19.seg: Write to restore size failed
tar: Error exit delayed from previous errors.
trying URL 'https://datahub.assets.cbioportal.org/aml_stjude_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/aml_stjude_2024.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/pancreas_ctdna_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/pancreas_ctdna_msk_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/uec_msk_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/uec_msk_2024.tar.gz'
Error in TCGAutils::uniformBuilds(x[[ncbi]]) : 
  Frequency of NA values higher than the cutoff tolerance
trying URL 'https://datahub.assets.cbioportal.org/soft_tissue_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/soft_tissue_msk_2025.tar.gz'
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
trying URL 'https://datahub.assets.cbioportal.org/pancan_hcmi_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/pancan_hcmi_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/blca_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/blca_msk_2025.tar.gz'
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in TCGAutils::uniformBuilds(x[[ncbi]]) : 
  Frequency of NA values higher than the cutoff tolerance
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in TCGAutils::uniformBuilds(x[[ncbi]]) : 
  Frequency of NA values higher than the cutoff tolerance
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
Error in read.table(file = file, header = header, sep = sep, quote = quote,  : 
  more columns than column names
brca_metabric/data_methylation_promoters_rrbs.txt: Write failed
brca_metabric/meta_study.txt: Write to restore size failed
brca_metabric/data_clinical_sample.txt: Write to restore size failed
brca_metabric/data_cna.txt: Write to restore size failed
tar: Error exit delayed from previous errors.
Error in file(con, "r") : invalid 'description' argument
trying URL 'https://datahub.assets.cbioportal.org/pancan_ped_mai_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/pancan_ped_mai_msk_2025.tar.gz'
brca_tcga/data_methylation_hm450.txt: Write failed
brca_tcga/data_cna_hg19.seg: Write to restore size failed
tar: Error exit delayed from previous errors.
brca_tcga_gdc/data_mrna_seq_fpkm_zscores_ref_all_samples.txt: Write failed
brca_tcga_gdc/data_mrna_seq_read_counts.txt: Write to restore size failed
brca_tcga_gdc/data_mrna_seq_read_counts_zscores_ref_all_samples.txt: Write to restore size failed
brca_tcga_gdc/data_mrna_seq_tpm.txt: Write to restore size failed
tar: Error exit delayed from previous errors.
trying URL 'https://datahub.assets.cbioportal.org/rectal_radiation_msk_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/rectal_radiation_msk_2024.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/prad_idhmut_msk_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/prad_idhmut_msk_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/sarcoma_msk_2026.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/sarcoma_msk_2026.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/ucs_msk_2024.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/ucs_msk_2024.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/cllsll_msk_2026.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/cllsll_msk_2026.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/mnm_washu_2016.tar.gz'
Content type 'application/x-tar' length 57553 bytes (56 KB)
==================================================
downloaded 56 KB

trying URL 'https://datahub.assets.cbioportal.org/lung_pdx_msk_2021.tar.gz'
Content type 'application/x-tar' length 120067 bytes (117 KB)
==================================================
downloaded 117 KB

trying URL 'https://datahub.assets.cbioportal.org/hcc_tcga_gdc.tar.gz'
Content type 'application/x-tar' length 159248208 bytes (151.9 MB)
==================================================
downloaded 151.9 MB

trying URL 'https://datahub.assets.cbioportal.org/nccrcc_genentech_2014.tar.gz'
Content type 'application/x-tar' length 1205291 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://datahub.assets.cbioportal.org/gct_msk_2016.tar.gz'
Content type 'application/x-tar' length 156972 bytes (153 KB)
==================================================
downloaded 153 KB

trying URL 'https://datahub.assets.cbioportal.org/acyc_jhu_2016.tar.gz'
Content type 'application/x-tar' length 39877 bytes (38 KB)
==================================================
downloaded 38 KB

trying URL 'https://datahub.assets.cbioportal.org/nepc_wcm_2016.tar.gz'
Content type 'application/x-tar' length 15726728 bytes (15.0 MB)
==================================================
downloaded 15.0 MB

trying URL 'https://datahub.assets.cbioportal.org/sarcoma_mskcc_2022.tar.gz'
Content type 'application/x-tar' length 2080544 bytes (2.0 MB)
==================================================
downloaded 2.0 MB

trying URL 'https://datahub.assets.cbioportal.org/kich_tcga_pan_can_atlas_2018.tar.gz'
Content type 'application/x-tar' length 31781921 bytes (30.3 MB)
==================================================
downloaded 30.3 MB

trying URL 'https://datahub.assets.cbioportal.org/histiocytosis_cobi_msk_2019.tar.gz'
Content type 'application/x-tar' length 59379 bytes (57 KB)
==================================================
downloaded 57 KB

trying URL 'https://datahub.assets.cbioportal.org/gbc_mskcc_2022.tar.gz'
Content type 'application/x-tar' length 294636 bytes (287 KB)
==================================================
downloaded 287 KB

trying URL 'https://datahub.assets.cbioportal.org/stad_tcga_gdc.tar.gz'
Content type 'application/x-tar' length 259409614 bytes (247.4 MB)
==================================================
downloaded 247.4 MB

stad_tcga_gdc/data_mrna_seq_read_counts_zscores_ref_all_samples.txt: Write failed
stad_tcga_gdc/data_mrna_seq_fpkm_zscores_ref_all_samples.txt: Write to restore size failed
stad_tcga_gdc/data_cna.txt: Write to restore size failed
stad_tcga_gdc/data_mrna_seq_tpm.txt: Write to restore size failed
tar: Error exit delayed from previous errors.
trying URL 'https://datahub.assets.cbioportal.org/utuc_igbmc_2021.tar.gz'
Content type 'application/x-tar' length 224873 bytes (219 KB)
==================================================
downloaded 219 KB

trying URL 'https://datahub.assets.cbioportal.org/tgct_tcga_pan_can_atlas_2018.tar.gz'
Content type 'application/x-tar' length 55773763 bytes (53.2 MB)
==================================================
downloaded 53.2 MB

trying URL 'https://datahub.assets.cbioportal.org/ccrcc_dfci_2019.tar.gz'
Content type 'application/x-tar' length 934044 bytes (912 KB)
==================================================
downloaded 912 KB

trying URL 'https://datahub.assets.cbioportal.org/kich_tcga.tar.gz'
Content type 'application/x-tar' length 21938643 bytes (20.9 MB)
==================================================
downloaded 20.9 MB

trying URL 'https://datahub.assets.cbioportal.org/soft_tissue_tcga_gdc.tar.gz'
Content type 'application/x-tar' length 114311516 bytes (109.0 MB)
==================================================
downloaded 109.0 MB

trying URL 'https://datahub.assets.cbioportal.org/aml_target_2018_pub.tar.gz'
Content type 'application/x-tar' length 30103343 bytes (28.7 MB)
==================================================
downloaded 28.7 MB

trying URL 'https://datahub.assets.cbioportal.org/ucec_msk_dacruzpaula_2025.tar.gz'
Error in download.file(url = url, destfile = destfile) : 
  cannot open URL 'https://datahub.assets.cbioportal.org/ucec_msk_dacruzpaula_2025.tar.gz'
trying URL 'https://datahub.assets.cbioportal.org/skcm_broad.tar.gz'
Content type 'application/x-tar' length 40396513 bytes (38.5 MB)
==================================================
downloaded 38.5 MB

trying URL 'https://datahub.assets.cbioportal.org/ucec_tcga.tar.gz'
Content type 'application/x-tar' length 120358170 bytes (114.8 MB)
==================================================
downloaded 114.8 MB

ucec_tcga/data_methylation_hm450.txt: Write failed
ucec_tcga/data_mutsig.txt: Can't create 'ucec_tcga/data_mutsig.txt'
ucec_tcga/data_mrna_seq_v2_rsem.txt: Can't create 'ucec_tcga/data_mrna_seq_v2_rsem.txt'
ucec_tcga/data_cna_hg19.seg: Can't create 'ucec_tcga/data_cna_hg19.seg'
ucec_tcga/data_clinical_sample.txt: Can't create 'ucec_tcga/data_clinical_sample.txt'
ucec_tcga/data_rppa_zscores.txt: Can't create 'ucec_tcga/data_rppa_zscores.txt'
ucec_tcga/data_mrna_seq_v2_rsem_zscores_ref_all_samples.txt: Can't create 'ucec_tcga/data_mrna_seq_v2_rsem_zscores_ref_all_samples.txt'
tar: Error exit delayed from previous errors.
trying URL 'https://datahub.assets.cbioportal.org/brca_tcga_pan_can_atlas_2018.tar.gz'
Content type 'application/x-tar' length 491659217 bytes (468.9 MB)
================================
downloaded 307.4 MB

Error in download.file(url = url, destfile = destfile) : 
  download from 'https://datahub.assets.cbioportal.org/brca_tcga_pan_can_atlas_2018.tar.gz' failed
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b635e89e6.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b53af8e01.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b2a940e93.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b5e48eabb.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b52acb59.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b3c8c42b5.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b1c6f9821.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b626cad1c.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b4cd93bbf.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b49e1a003.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b7bd04ad9.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b27e22c10.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b71bae2e4.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b24862111.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b61e4f5d2.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b7ec6e033.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b32a9754b.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b1353a8e9.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b597662e8.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b6b579b3a.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b449033e4.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b573ee0e6.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b611f48c9.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b4ce3b5ef.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b79bd8558.
Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
  Failed to open file /tmp/RtmpEKNoAk/file343b97d92d9.
Saving _problems/test_cBioDataPack-19.R
Saving _problems/test_cBioPortalData-3.R
[ FAIL 2 | WARN 324 | SKIP 0 | PASS 6 ]

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no cBioPortalData_2.22.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/cBioPortalData.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘cBioPortalData/DESCRIPTION’ ... OK
* this is package ‘cBioPortalData’ version ‘2.22.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘cBioPortalData’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
    Failed to open file /tmp/RtmpEKNoAk/file343b449033e4.
  Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
    Failed to open file /tmp/RtmpEKNoAk/file343b573ee0e6.
  Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
    Failed to open file /tmp/RtmpEKNoAk/file343b611f48c9.
  Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
    Failed to open file /tmp/RtmpEKNoAk/file343b4ce3b5ef.
  Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
    Failed to open file /tmp/RtmpEKNoAk/file343b79bd8558.
  Error in curl::curl_fetch_disk(url, x$path, handle = handle) : 
    Failed to open file /tmp/RtmpEKNoAk/file343b97d92d9.
  Saving _problems/test_cBioDataPack-19.R
  Saving _problems/test_cBioPortalData-3.R
  [ FAIL 2 | WARN 324 | SKIP 0 | PASS 6 ]
  
* DONE

Status: 1 ERROR
See
  ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/cBioPortalData.Rcheck/00check.log’
for details.

* installing *source* package ‘cBioPortalData’ ...
** this is package ‘cBioPortalData’ version ‘2.22.3’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (cBioPortalData)