Bioconductor Single Package Builder - Build History

Snapshot Date:

URL: https://git.bioconductor.org/packages/cytoMEM

Last Changed Rev: / Revision:

Last Changed Date:

Hostname	OS /Arch	BUILD	CHECK	BUILD BIN	POST-PROCESSING
nebbiolo1	Linux (Ubuntu 20.04.4 LTS)/x86_64	OK	ERROR	skipped	OK
merida1	macOS 10.14.6 Mojave/x86_64	OK	ERROR	OK	OK

nebbiolo1 Summary

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Package: cytoMEM

Version: 0.99.0

RVersion: 4.2

BiocVersion: 3.15

BuildCommand: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data cytoMEM

BuildTime: 0 minutes 10.32 seconds

CheckCommand: BiocCheckGitClone('cytoMEM') && /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --no-vignettes --timings cytoMEM_0.99.0.tar.gz && BiocCheck('cytoMEM_0.99.0.tar.gz', `new-package`=TRUE)

CheckTime: 0 minutes 45.96 seconds

BuildBinCommand:

BuildBinTime:

PackageFileSize: 3082.92 KiB

BuildID:: cytoMEM_20220321190114

PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: cytoMEM. Starting Build package. Starting Check package.

PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 0. Installing package status: 0. Build Package status: 0. Checking Package status: 1.

nebbiolo1 BUILD SRC output

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===============================

 R CMD BUILD

===============================

* checking for file ‘cytoMEM/DESCRIPTION’ ... OK
* preparing ‘cytoMEM’:
* 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
* looking to see if a ‘data/datalist’ file should be added
* building ‘cytoMEM_0.99.0.tar.gz’

nebbiolo1 CHECK output

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===============================

 BiocCheckGitClone('cytoMEM')

===============================

This is BiocCheckGitClone version 1.31.36. BiocCheckGitClone is a work
in progress. Output and severity of issues may change.
* Checking valid files...
* Checking DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for valid maintainer...
* Checking CITATION...


Summary:
ERROR count: 0
WARNING count: 0
NOTE count: 0
For detailed information about these checks, see the BiocCheck
vignette, available at
https://bioconductor.org/packages/3.15/bioc/vignettes/BiocCheck/inst/doc/BiocCheck.html#interpreting-bioccheck-output




===============================

 R CMD CHECK

===============================

* using log directory ‘/home/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM.Rcheck’
* using R Under development (unstable) (2022-03-17 r81925)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cytoMEM/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cytoMEM’ version ‘0.99.0’
* 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 ‘cytoMEM’ can be installed ... [4s/4s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ 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 ... NOTE
Found the following CITATION file in a non-standard place:
  inst/CITATION.md
Most likely ‘inst/CITATION’ should be used instead.
* checking R 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 loading without being on the library search path ... OK
* checking use of S3 registration ... 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 ... [5s/5s] NOTE
MEM: no visible binding for global variable ‘cluster’
choose_ref: no visible binding for global variable ‘cluster’
Undefined global functions or variables:
  cluster
* checking Rd files ... [0s/0s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [5s/5s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM.Rcheck/00check.log’
for details.






===============================

 BiocCheck('cytoMEM_0.99.0.tar.gz')

===============================

This is BiocCheck version 1.31.36. BiocCheck is a work in progress.
Output and severity of issues may change. Installing package...
* Checking Package Dependencies...
Warning in system2(cmd, args, stdout = TRUE, stderr = FALSE, env = "R_DEFAULT_PACKAGES=NULL") :
  running command 'R_DEFAULT_PACKAGES=NULL '/home/biocbuild/bbs-3.15-bioc/R/bin/R' -q --vanilla --slave -f /home/biocbuild/bbs-3.15-bioc/R/library/BiocCheck/script/checkBadDeps.R --args "/home/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM_0.99.0.tar.gz" "/tmp/RtmpwOaZu2/file3a8c477a92dffc/lib" 2>/dev/null' had status 1
* Checking if other packages can import this one...
* Checking to see if we understand object initialization...
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
* Checking version number...
* Checking for version number mismatch...
* Checking new package version number...
* Checking R Version dependency...
    * NOTE: Update R version dependency from 4.1 to 4.2.0.
* Checking package size...
* Checking individual file sizes...
* Checking biocViews...
* Checking that biocViews are present...
* Checking package type based on biocViews...
    Software
* Checking for non-trivial biocViews...
* Checking that biocViews come from the same category...
* Checking biocViews validity...
* Checking for recommended biocViews...
* Checking build system compatibility...
* Checking for blank lines in DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for proper Description: field...
* Checking for whitespace in DESCRIPTION field names...
* Checking that Package field matches directory/tarball name...
* Checking for Version field...
* Checking for valid maintainer...
* Checking License: for restrictive use...
* Checking for pinned package versions...
* Checking DESCRIPTION/NAMESPACE consistency...
* Checking .Rbuildignore...
* Checking vignette directory...
* Checking whether vignette is built with 'R CMD build'...
* Checking package installation calls in R code...
* Checking for library/require of cytoMEM...
* Checking coding practice...
    * NOTE: Avoid 'cat' and 'print' outside of 'show' methods
      Found in files:
        cat() in R/build_heatmaps.R (line 322, column 13)
        cat() in R/build_heatmaps.R (line 327, column 13)
        cat() in R/build_heatmaps.R (line 328, column 13)
        print() in R/choose_markers.R (line 2, column 5)
        print() in R/choose_markers.R (line 3, column 5)
        print() in R/choose_reference_pop.R (line 6, column 5)
        print() in R/choose_reference_pop.R (line 10, column 5)
        print() in R/rename_markers.R (line 2, column 5)
    * NOTE: Avoid using '=' for assignment and use '<-' instead
      Found in files:
        R/add_cluster_ID.R (line 3, column 15)
        R/add_cluster_ID.R (line 4, column 13)
        R/add_cluster_ID.R (line 5, column 15)
        R/add_fileID_to_clusterID.R (line 3, column 13)
        R/add_fileID_to_clusterID.R (line 4, column 12)
        R/add_fileID_to_clusterID.R (line 5, column 15)
        R/add_fileID_to_clusterID.R (line 6, column 13)
        R/add_fileID_to_clusterID.R (line 7, column 15)
        R/build_heatmaps.R (line 10, column 24)
        R/build_heatmaps.R (line 11, column 24)
        R/build_heatmaps.R (line 12, column 24)
        R/build_heatmaps.R (line 15, column 22)
        R/build_heatmaps.R (line 16, column 20)
        R/build_heatmaps.R (line 18, column 23)
        R/build_heatmaps.R (line 28, column 23)
        R/build_heatmaps.R (line 29, column 23)
        R/build_heatmaps.R (line 44, column 28)
        R/build_heatmaps.R (line 45, column 19)
        R/build_heatmaps.R (line 55, column 28)
        R/build_heatmaps.R (line 57, column 23)
        R/build_heatmaps.R (line 59, column 23)
        R/build_heatmaps.R (line 69, column 24)
        R/build_heatmaps.R (line 72, column 22)
        R/build_heatmaps.R (line 73, column 26)
        R/build_heatmaps.R (line 76, column 26)
        R/build_heatmaps.R (line 77, column 26)
        R/build_heatmaps.R (line 80, column 26)
        R/build_heatmaps.R (line 81, column 26)
        R/build_heatmaps.R (line 84, column 26)
        R/build_heatmaps.R (line 85, column 26)
        R/build_heatmaps.R (line 88, column 26)
        R/build_heatmaps.R (line 89, column 26)
        R/build_heatmaps.R (line 92, column 26)
        R/build_heatmaps.R (line 93, column 26)
        R/build_heatmaps.R (line 96, column 26)
        R/build_heatmaps.R (line 97, column 26)
        R/build_heatmaps.R (line 100, column 26)
        R/build_heatmaps.R (line 101, column 26)
        R/build_heatmaps.R (line 104, column 26)
        R/build_heatmaps.R (line 105, column 26)
        R/build_heatmaps.R (line 108, column 26)
        R/build_heatmaps.R (line 109, column 26)
        R/build_heatmaps.R (line 112, column 26)
        R/build_heatmaps.R (line 113, column 26)
        R/build_heatmaps.R (line 116, column 26)
        R/build_heatmaps.R (line 117, column 26)
        R/build_heatmaps.R (line 120, column 26)
        R/build_heatmaps.R (line 121, column 26)
        R/build_heatmaps.R (line 125, column 23)
        R/build_heatmaps.R (line 127, column 23)
        R/build_heatmaps.R (line 128, column 26)
        R/build_heatmaps.R (line 150, column 30)
        R/build_heatmaps.R (line 159, column 30)
        R/build_heatmaps.R (line 168, column 26)
        R/build_heatmaps.R (line 169, column 20)
        R/build_heatmaps.R (line 170, column 25)
        R/build_heatmaps.R (line 172, column 42)
        R/build_heatmaps.R (line 174, column 42)
        R/build_heatmaps.R (line 176, column 38)
        R/build_heatmaps.R (line 178, column 38)
        R/build_heatmaps.R (line 180, column 25)
        R/build_heatmaps.R (line 182, column 21)
        R/build_heatmaps.R (line 185, column 31)
        R/build_heatmaps.R (line 203, column 35)
        R/build_heatmaps.R (line 212, column 33)
        R/build_heatmaps.R (line 214, column 35)
        R/build_heatmaps.R (line 225, column 31)
        R/build_heatmaps.R (line 243, column 35)
        R/build_heatmaps.R (line 252, column 29)
        R/build_heatmaps.R (line 254, column 35)
        R/build_heatmaps.R (line 268, column 25)
        R/build_heatmaps.R (line 309, column 34)
        R/build_heatmaps.R (line 310, column 35)
        R/build_heatmaps.R (line 325, column 30)
        R/build_heatmaps.R (line 326, column 31)
        R/choose_markers.R (line 6, column 14)
        R/choose_markers.R (line 7, column 14)
        R/choose_markers.R (line 8, column 15)
        R/choose_markers.R (line 10, column 13)
        R/choose_markers.R (line 12, column 21)
        R/choose_markers.R (line 14, column 21)
        R/choose_markers.R (line 16, column 19)
        R/choose_markers.R (line 18, column 16)
        R/choose_reference_pop.R (line 8, column 12)
        R/choose_reference_pop.R (line 9, column 12)
        R/choose_reference_pop.R (line 11, column 19)
        R/choose_reference_pop.R (line 12, column 14)
        R/choose_reference_pop.R (line 16, column 18)
        R/choose_reference_pop.R (line 17, column 16)
        R/choose_reference_pop.R (line 20, column 16)
        R/choose_reference_pop.R (line 24, column 16)
        R/choose_reference_pop.R (line 32, column 16)
        R/create_labels_txt.R (line 4, column 27)
        R/create_labels_txt.R (line 5, column 27)
        R/create_labels_txt.R (line 8, column 24)
        R/create_labels_txt.R (line 9, column 24)
        R/create_labels_txt.R (line 11, column 31)
        R/create_labels_txt.R (line 12, column 31)
        R/create_labels_txt.R (line 14, column 23)
        R/create_labels_txt.R (line 15, column 23)
        R/create_labels_txt.R (line 17, column 27)
        R/create_labels_txt.R (line 20, column 27)
        R/create_labels_txt.R (line 23, column 26)
        R/create_labels_txt.R (line 26, column 30)
        R/create_labels_txt.R (line 27, column 25)
        R/create_labels_txt.R (line 28, column 34)
        R/create_labels_txt.R (line 29, column 26)
        R/create_labels_txt.R (line 32, column 30)
        R/create_labels_txt.R (line 33, column 25)
        R/create_labels_txt.R (line 34, column 34)
        R/create_labels_txt.R (line 36, column 13)
        R/create_labels_txt.R (line 37, column 22)
        R/create_labels.R (line 4, column 27)
        R/create_labels.R (line 5, column 27)
        R/create_labels.R (line 8, column 24)
        R/create_labels.R (line 9, column 24)
        R/create_labels.R (line 11, column 31)
        R/create_labels.R (line 12, column 31)
        R/create_labels.R (line 14, column 23)
        R/create_labels.R (line 15, column 23)
        R/create_labels.R (line 17, column 27)
        R/create_labels.R (line 20, column 27)
        R/create_labels.R (line 23, column 26)
        R/create_labels.R (line 26, column 30)
        R/create_labels.R (line 27, column 25)
        R/create_labels.R (line 28, column 34)
        R/create_labels.R (line 29, column 26)
        R/create_labels.R (line 32, column 30)
        R/create_labels.R (line 33, column 25)
        R/create_labels.R (line 34, column 34)
        R/create_labels.R (line 36, column 22)
        R/format_data.R (line 3, column 14)
        R/format_data.R (line 6, column 18)
        R/format_data.R (line 15, column 18)
        R/format_data.R (line 18, column 15)
        R/get_files.R (line 3, column 9)
        R/get_files.R (line 6, column 18)
        R/get_files.R (line 7, column 18)
        R/get_files.R (line 8, column 21)
        R/get_files.R (line 12, column 18)
        R/get_files.R (line 13, column 21)
        R/get_files.R (line 17, column 18)
        R/get_files.R (line 18, column 21)
        R/get_files.R (line 29, column 24)
        R/IQR_thresh.R (line 8, column 20)
        R/IQR_thresh.R (line 9, column 20)
        R/IQR_thresh.R (line 16, column 17)
        R/MEM_function.R (line 4, column 20)
        R/MEM_function.R (line 4, column 48)
        R/MEM_function.R (line 19, column 18)
        R/MEM_function.R (line 28, column 18)
        R/MEM_function.R (line 30, column 18)
        R/MEM_function.R (line 33, column 22)
        R/MEM_function.R (line 36, column 22)
        R/MEM_function.R (line 39, column 22)
        R/MEM_function.R (line 43, column 18)
        R/MEM_function.R (line 45, column 20)
        R/MEM_function.R (line 46, column 23)
        R/MEM_function.R (line 46, column 65)
        R/MEM_function.R (line 47, column 23)
        R/MEM_function.R (line 49, column 21)
        R/MEM_function.R (line 51, column 29)
        R/MEM_function.R (line 53, column 28)
        R/MEM_function.R (line 55, column 27)
        R/MEM_function.R (line 57, column 24)
        R/MEM_function.R (line 59, column 14)
        R/MEM_function.R (line 60, column 18)
        R/MEM_function.R (line 63, column 26)
        R/MEM_function.R (line 65, column 26)
        R/MEM_function.R (line 67, column 26)
        R/MEM_function.R (line 68, column 26)
        R/MEM_function.R (line 71, column 30)
        R/MEM_function.R (line 74, column 26)
        R/MEM_function.R (line 76, column 18)
        R/MEM_function.R (line 78, column 18)
        R/MEM_function.R (line 79, column 17)
        R/MEM_function.R (line 80, column 24)
        R/MEM_function.R (line 81, column 15)
        R/MEM_function.R (line 82, column 14)
        R/MEM_function.R (line 83, column 15)
        R/MEM_function.R (line 84, column 12)
        R/MEM_function.R (line 85, column 12)
        R/MEM_function.R (line 86, column 12)
        R/MEM_function.R (line 87, column 12)
        R/MEM_function.R (line 90, column 18)
        R/MEM_function.R (line 91, column 28)
        R/MEM_function.R (line 95, column 13)
        R/MEM_function.R (line 96, column 20)
        R/MEM_function.R (line 97, column 20)
        R/MEM_function.R (line 98, column 13)
        R/MEM_function.R (line 104, column 21)
        R/MEM_function.R (line 105, column 16)
        R/MEM_function.R (line 106, column 16)
        R/MEM_function.R (line 109, column 22)
        R/MEM_function.R (line 110, column 16)
        R/MEM_function.R (line 111, column 16)
        R/MEM_function.R (line 114, column 17)
        R/MEM_function.R (line 115, column 24)
        R/MEM_function.R (line 116, column 24)
        R/MEM_function.R (line 117, column 17)
        R/MEM_function.R (line 124, column 19)
        R/MEM_function.R (line 127, column 19)
        R/MEM_function.R (line 130, column 19)
        R/MEM_function.R (line 133, column 20)
        R/MEM_function.R (line 134, column 20)
        R/MEM_function.R (line 136, column 13)
        R/MEM_function.R (line 142, column 14)
        R/MEM_function.R (line 143, column 16)
        R/MEM_function.R (line 149, column 26)
        R/MEM_function.R (line 151, column 19)
        R/MEM_function.R (line 152, column 20)
        R/MEM_function.R (line 154, column 23)
        R/MEM_function.R (line 155, column 19)
        R/MEM_function.R (line 156, column 19)
        R/MEM_function.R (line 157, column 20)
        R/MEM_function.R (line 159, column 23)
        R/MEM_function.R (line 160, column 19)
        R/MEM_function.R (line 161, column 19)
        R/MEM_function.R (line 162, column 20)
        R/MEM_function.R (line 165, column 21)
        R/MEM_function.R (line 166, column 21)
        R/MEM_function.R (line 175, column 40)
        R/MEM_RMSD.R (line 8, column 26)
        R/MEM_RMSD.R (line 9, column 18)
        R/MEM_RMSD.R (line 10, column 24)
        R/MEM_RMSD.R (line 13, column 27)
        R/MEM_RMSD.R (line 15, column 31)
        R/MEM_RMSD.R (line 18, column 27)
        R/MEM_RMSD.R (line 21, column 31)
        R/MEM_RMSD.R (line 24, column 36)
        R/MEM_RMSD.R (line 25, column 27)
        R/MEM_RMSD.R (line 26, column 27)
        R/MEM_RMSD.R (line 27, column 26)
        R/MEM_RMSD.R (line 28, column 26)
        R/MEM_RMSD.R (line 29, column 33)
        R/MEM_RMSD.R (line 31, column 37)
        R/MEM_RMSD.R (line 34, column 32)
        R/MEM_RMSD.R (line 35, column 38)
        R/MEM_RMSD.R (line 40, column 28)
        R/MEM_RMSD.R (line 42, column 28)
        R/MEM_RMSD.R (line 44, column 26)
        R/MEM_RMSD.R (line 46, column 30)
        R/MEM_RMSD.R (line 48, column 18)
        R/MEM_RMSD.R (line 50, column 24)
        R/MEM_RMSD.R (line 54, column 26)
        R/MEM_RMSD.R (line 55, column 26)
        R/MEM_RMSD.R (line 56, column 36)
        R/MEM_RMSD.R (line 57, column 33)
        R/MEM_RMSD.R (line 59, column 37)
        R/MEM_RMSD.R (line 61, column 32)
        R/MEM_RMSD.R (line 62, column 38)
        R/MEM_RMSD.R (line 66, column 31)
        R/MEM_RMSD.R (line 67, column 30)
        R/MEM_RMSD.R (line 70, column 19)
        R/MEM_RMSD.R (line 71, column 19)
        R/MEM_RMSD.R (line 72, column 21)
        R/MEM_RMSD.R (line 97, column 28)
        R/rename_markers.R (line 3, column 22)
        R/rename_markers.R (line 6, column 22)
        R/rename_markers.R (line 13, column 26)
        R/rename_markers.R (line 16, column 22)
        R/zero_reference.R (line 2, column 12)
        R/zero_reference.R (line 3, column 12)
        R/zero_reference.R (line 4, column 12)
        R/zero_reference.R (line 5, column 10)
        R/zero_reference.R (line 6, column 15)
        R/zero_reference.R (line 7, column 12)
    * WARNING: Avoid class membership checks with class() / is() and ==
      / !=; Use is(x, 'class') for S4 classes
      Found in files:
        MEM_function.R (line 10, column 24)
        MEM_function.R (line 14, column 24)
        MEM_function.R (line 14, column 58)
        MEM_function.R (line 14, column 89)
        MEM_function.R (line 20, column 24)
        MEM_function.R (line 29, column 24)
        MEM_function.R (line 34, column 31)
        MEM_function.R (line 34, column 62)
        MEM_RMSD.R (line 42, column 35)
* Checking parsed R code in R directory, examples, vignettes...
* Checking function lengths...
    * NOTE: Recommended function length <= 50 lines.
      There are 3 functions > 50 lines.
      The longest 5 functions are:
        build_heatmaps() (R/build_heatmaps.R, line 1): 329 lines
        MEM() (R/MEM_function.R, line 1): 180 lines
        MEM_RMSD() (R/MEM_RMSD.R, line 1): 128 lines
        create.labels.txt() (R/create_labels_txt.R, line 1): 46 lines
        create.labels() (R/create_labels.R, line 1): 46 lines
* Checking man page documentation...
* Checking package NEWS...
* Checking unit tests...
    * NOTE: Consider adding unit tests. We strongly encourage them. See
      http://bioconductor.org/developers/how-to/unitTesting-guidelines/.
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source,
  and vignette source...
    * NOTE: Consider shorter lines; 163 lines (9%) are > 80 characters
      long.
    First 6 lines:
      R/build_heatmaps.R:17         if (length(which(apply(heatmap_data, 1, f...
      R/build_heatmaps.R:33                 colorRampPalette(c("#A8C3F4", "#1...
      R/build_heatmaps.R:76         new_rownames = create.labels(MEM_vals_sca...
      R/build_heatmaps.R:77         new_rownames_txt = create.labels.txt(MEM_...
      R/build_heatmaps.R:130         if (length(which(apply(heatmap_data, 1, ...
      R/build_heatmaps.R:182         if (length(which(apply(heatmap_data, 1, ...
    * NOTE: Consider multiples of 4 spaces for line indents, 184
      lines(11%) are not.
    First 6 lines:
      R/build_heatmaps.R:3              cluster.MEM = "both",
      R/build_heatmaps.R:4              cluster.medians = "none",
      R/build_heatmaps.R:5              cluster.IQRs = "none",
      R/build_heatmaps.R:6              display.thresh = 1,
      R/build_heatmaps.R:7              output.files = FALSE,
      R/build_heatmaps.R:8              labels = FALSE,
    See http://bioconductor.org/developers/how-to/coding-style/
    See styler package: https://cran.r-project.org/package=styler as
      described in the BiocCheck vignette.
* Checking if package already exists in CRAN...
* Checking if new package already exists in Bioconductor...
* Checking for bioc-devel mailing list subscription...
    * ERROR: Maintainer must subscribe to the bioc-devel mailing list.
      Subscribe here: https://stat.ethz.ch/mailman/listinfo/bioc-devel
* Checking for support site registration...
    Maintainer is registered at support site.
    Package name is in support site watched tags.


Summary:
ERROR count: 1
WARNING count: 1
NOTE count: 7
For detailed information about these checks, see the BiocCheck
vignette, available at
https://bioconductor.org/packages/3.15/bioc/vignettes/BiocCheck/inst/doc/BiocCheck.html#interpreting-bioccheck-output
BiocCheck FAILED.

nebbiolo1 BUILD BIN output

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merida1 Summary

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Package: cytoMEM

Version: 0.99.0

RVersion: 4.2

BiocVersion: 3.15

BuildCommand: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data cytoMEM

BuildTime: 0 minutes 16.50 seconds

CheckCommand: BiocCheckGitClone('cytoMEM') && /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cytoMEM_0.99.0.tar.gz && BiocCheck('cytoMEM_0.99.0.tar.gz', `new-package`=TRUE)

CheckTime: 1 minutes 20.51 seconds

BuildBinCommand: /Users/biocbuild/BBS/utils/build-universal.sh cytoMEM_0.99.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R libdir

BuildBinTime: 0 minutes 8.03 seconds

PackageFileSize: 3080.62 KiB

BuildID:: cytoMEM_20220321190114

PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: cytoMEM. Starting Build package. Starting Check package. Starting Build package.

merida1 BUILD SRC output

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===============================

 R CMD BUILD

===============================

* checking for file ‘cytoMEM/DESCRIPTION’ ... OK
* preparing ‘cytoMEM’:
* 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
* looking to see if a ‘data/datalist’ file should be added
* building ‘cytoMEM_0.99.0.tar.gz’

merida1 CHECK output

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===============================

 BiocCheckGitClone('cytoMEM')

===============================

This is BiocCheckGitClone version 1.31.36. BiocCheckGitClone is a work
in progress. Output and severity of issues may change.
* Checking valid files...
* Checking DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for valid maintainer...
* Checking CITATION...


Summary:
ERROR count: 0
WARNING count: 0
NOTE count: 0
For detailed information about these checks, see the BiocCheck
vignette, available at
https://bioconductor.org/packages/3.15/bioc/vignettes/BiocCheck/inst/doc/BiocCheck.html#interpreting-bioccheck-output




===============================

 R CMD CHECK

===============================

* using log directory ‘/Users/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM.Rcheck’
* using R Under development (unstable) (2022-03-17 r81925)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cytoMEM/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cytoMEM’ version ‘0.99.0’
* 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 ‘cytoMEM’ can be installed ... [7s/7s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ 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 ... NOTE
Found the following CITATION file in a non-standard place:
  inst/CITATION.md
Most likely ‘inst/CITATION’ should be used instead.
* checking R 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 loading without being on the library search path ... OK
* checking use of S3 registration ... 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 ... [9s/9s] NOTE
MEM: no visible binding for global variable ‘cluster’
choose_ref: no visible binding for global variable ‘cluster’
Undefined global functions or variables:
  cluster
* checking Rd files ... [0s/0s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [7s/7s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM.Rcheck/00check.log’
for details.






===============================

 BiocCheck('cytoMEM_0.99.0.tar.gz')

===============================

This is BiocCheck version 1.31.36. BiocCheck is a work in progress.
Output and severity of issues may change. Installing package...
* Checking Package Dependencies...
Warning in system2(cmd, args, stdout = TRUE, stderr = FALSE, env = "R_DEFAULT_PACKAGES=NULL") :
  running command 'R_DEFAULT_PACKAGES=NULL '/Library/Frameworks/R.framework/Resources/bin/R' -q --vanilla --slave -f /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BiocCheck/script/checkBadDeps.R --args "/Users/pkgbuild/packagebuilder/workers/jobs/2570/cytoMEM_20220321190114/cytoMEM_0.99.0.tar.gz" "/var/folders/7y/c__3_48d5y18p1_rhfs_4x9c0000gt/T//RtmpNNNrJa/filef52a15400ec1/lib" 2>/dev/null' had status 1
* Checking if other packages can import this one...
* Checking to see if we understand object initialization...
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
* Checking version number...
* Checking for version number mismatch...
* Checking new package version number...
* Checking R Version dependency...
    * NOTE: Update R version dependency from 4.1 to 4.2.0.
* Checking package size...
* Checking individual file sizes...
* Checking biocViews...
* Checking that biocViews are present...
* Checking package type based on biocViews...
    Software
* Checking for non-trivial biocViews...
* Checking that biocViews come from the same category...
* Checking biocViews validity...
* Checking for recommended biocViews...
* Checking build system compatibility...
* Checking for blank lines in DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for proper Description: field...
* Checking for whitespace in DESCRIPTION field names...
* Checking that Package field matches directory/tarball name...
* Checking for Version field...
* Checking for valid maintainer...
* Checking License: for restrictive use...
* Checking for pinned package versions...
* Checking DESCRIPTION/NAMESPACE consistency...
* Checking .Rbuildignore...
* Checking vignette directory...
* Checking whether vignette is built with 'R CMD build'...
* Checking package installation calls in R code...
* Checking for library/require of cytoMEM...
* Checking coding practice...
    * NOTE: Avoid 'cat' and 'print' outside of 'show' methods
      Found in files:
        cat() in R/build_heatmaps.R (line 322, column 13)
        cat() in R/build_heatmaps.R (line 327, column 13)
        cat() in R/build_heatmaps.R (line 328, column 13)
        print() in R/choose_markers.R (line 2, column 5)
        print() in R/choose_markers.R (line 3, column 5)
        print() in R/choose_reference_pop.R (line 6, column 5)
        print() in R/choose_reference_pop.R (line 10, column 5)
        print() in R/rename_markers.R (line 2, column 5)
    * NOTE: Avoid using '=' for assignment and use '<-' instead
      Found in files:
        R/add_cluster_ID.R (line 3, column 15)
        R/add_cluster_ID.R (line 4, column 13)
        R/add_cluster_ID.R (line 5, column 15)
        R/add_fileID_to_clusterID.R (line 3, column 13)
        R/add_fileID_to_clusterID.R (line 4, column 12)
        R/add_fileID_to_clusterID.R (line 5, column 15)
        R/add_fileID_to_clusterID.R (line 6, column 13)
        R/add_fileID_to_clusterID.R (line 7, column 15)
        R/build_heatmaps.R (line 10, column 24)
        R/build_heatmaps.R (line 11, column 24)
        R/build_heatmaps.R (line 12, column 24)
        R/build_heatmaps.R (line 15, column 22)
        R/build_heatmaps.R (line 16, column 20)
        R/build_heatmaps.R (line 18, column 23)
        R/build_heatmaps.R (line 28, column 23)
        R/build_heatmaps.R (line 29, column 23)
        R/build_heatmaps.R (line 44, column 28)
        R/build_heatmaps.R (line 45, column 19)
        R/build_heatmaps.R (line 55, column 28)
        R/build_heatmaps.R (line 57, column 23)
        R/build_heatmaps.R (line 59, column 23)
        R/build_heatmaps.R (line 69, column 24)
        R/build_heatmaps.R (line 72, column 22)
        R/build_heatmaps.R (line 73, column 26)
        R/build_heatmaps.R (line 76, column 26)
        R/build_heatmaps.R (line 77, column 26)
        R/build_heatmaps.R (line 80, column 26)
        R/build_heatmaps.R (line 81, column 26)
        R/build_heatmaps.R (line 84, column 26)
        R/build_heatmaps.R (line 85, column 26)
        R/build_heatmaps.R (line 88, column 26)
        R/build_heatmaps.R (line 89, column 26)
        R/build_heatmaps.R (line 92, column 26)
        R/build_heatmaps.R (line 93, column 26)
        R/build_heatmaps.R (line 96, column 26)
        R/build_heatmaps.R (line 97, column 26)
        R/build_heatmaps.R (line 100, column 26)
        R/build_heatmaps.R (line 101, column 26)
        R/build_heatmaps.R (line 104, column 26)
        R/build_heatmaps.R (line 105, column 26)
        R/build_heatmaps.R (line 108, column 26)
        R/build_heatmaps.R (line 109, column 26)
        R/build_heatmaps.R (line 112, column 26)
        R/build_heatmaps.R (line 113, column 26)
        R/build_heatmaps.R (line 116, column 26)
        R/build_heatmaps.R (line 117, column 26)
        R/build_heatmaps.R (line 120, column 26)
        R/build_heatmaps.R (line 121, column 26)
        R/build_heatmaps.R (line 125, column 23)
        R/build_heatmaps.R (line 127, column 23)
        R/build_heatmaps.R (line 128, column 26)
        R/build_heatmaps.R (line 150, column 30)
        R/build_heatmaps.R (line 159, column 30)
        R/build_heatmaps.R (line 168, column 26)
        R/build_heatmaps.R (line 169, column 20)
        R/build_heatmaps.R (line 170, column 25)
        R/build_heatmaps.R (line 172, column 42)
        R/build_heatmaps.R (line 174, column 42)
        R/build_heatmaps.R (line 176, column 38)
        R/build_heatmaps.R (line 178, column 38)
        R/build_heatmaps.R (line 180, column 25)
        R/build_heatmaps.R (line 182, column 21)
        R/build_heatmaps.R (line 185, column 31)
        R/build_heatmaps.R (line 203, column 35)
        R/build_heatmaps.R (line 212, column 33)
        R/build_heatmaps.R (line 214, column 35)
        R/build_heatmaps.R (line 225, column 31)
        R/build_heatmaps.R (line 243, column 35)
        R/build_heatmaps.R (line 252, column 29)
        R/build_heatmaps.R (line 254, column 35)
        R/build_heatmaps.R (line 268, column 25)
        R/build_heatmaps.R (line 309, column 34)
        R/build_heatmaps.R (line 310, column 35)
        R/build_heatmaps.R (line 325, column 30)
        R/build_heatmaps.R (line 326, column 31)
        R/choose_markers.R (line 6, column 14)
        R/choose_markers.R (line 7, column 14)
        R/choose_markers.R (line 8, column 15)
        R/choose_markers.R (line 10, column 13)
        R/choose_markers.R (line 12, column 21)
        R/choose_markers.R (line 14, column 21)
        R/choose_markers.R (line 16, column 19)
        R/choose_markers.R (line 18, column 16)
        R/choose_reference_pop.R (line 8, column 12)
        R/choose_reference_pop.R (line 9, column 12)
        R/choose_reference_pop.R (line 11, column 19)
        R/choose_reference_pop.R (line 12, column 14)
        R/choose_reference_pop.R (line 16, column 18)
        R/choose_reference_pop.R (line 17, column 16)
        R/choose_reference_pop.R (line 20, column 16)
        R/choose_reference_pop.R (line 24, column 16)
        R/choose_reference_pop.R (line 32, column 16)
        R/create_labels_txt.R (line 4, column 27)
        R/create_labels_txt.R (line 5, column 27)
        R/create_labels_txt.R (line 8, column 24)
        R/create_labels_txt.R (line 9, column 24)
        R/create_labels_txt.R (line 11, column 31)
        R/create_labels_txt.R (line 12, column 31)
        R/create_labels_txt.R (line 14, column 23)
        R/create_labels_txt.R (line 15, column 23)
        R/create_labels_txt.R (line 17, column 27)
        R/create_labels_txt.R (line 20, column 27)
        R/create_labels_txt.R (line 23, column 26)
        R/create_labels_txt.R (line 26, column 30)
        R/create_labels_txt.R (line 27, column 25)
        R/create_labels_txt.R (line 28, column 34)
        R/create_labels_txt.R (line 29, column 26)
        R/create_labels_txt.R (line 32, column 30)
        R/create_labels_txt.R (line 33, column 25)
        R/create_labels_txt.R (line 34, column 34)
        R/create_labels_txt.R (line 36, column 13)
        R/create_labels_txt.R (line 37, column 22)
        R/create_labels.R (line 4, column 27)
        R/create_labels.R (line 5, column 27)
        R/create_labels.R (line 8, column 24)
        R/create_labels.R (line 9, column 24)
        R/create_labels.R (line 11, column 31)
        R/create_labels.R (line 12, column 31)
        R/create_labels.R (line 14, column 23)
        R/create_labels.R (line 15, column 23)
        R/create_labels.R (line 17, column 27)
        R/create_labels.R (line 20, column 27)
        R/create_labels.R (line 23, column 26)
        R/create_labels.R (line 26, column 30)
        R/create_labels.R (line 27, column 25)
        R/create_labels.R (line 28, column 34)
        R/create_labels.R (line 29, column 26)
        R/create_labels.R (line 32, column 30)
        R/create_labels.R (line 33, column 25)
        R/create_labels.R (line 34, column 34)
        R/create_labels.R (line 36, column 22)
        R/format_data.R (line 3, column 14)
        R/format_data.R (line 6, column 18)
        R/format_data.R (line 15, column 18)
        R/format_data.R (line 18, column 15)
        R/get_files.R (line 3, column 9)
        R/get_files.R (line 6, column 18)
        R/get_files.R (line 7, column 18)
        R/get_files.R (line 8, column 21)
        R/get_files.R (line 12, column 18)
        R/get_files.R (line 13, column 21)
        R/get_files.R (line 17, column 18)
        R/get_files.R (line 18, column 21)
        R/get_files.R (line 29, column 24)
        R/IQR_thresh.R (line 8, column 20)
        R/IQR_thresh.R (line 9, column 20)
        R/IQR_thresh.R (line 16, column 17)
        R/MEM_function.R (line 4, column 20)
        R/MEM_function.R (line 4, column 48)
        R/MEM_function.R (line 19, column 18)
        R/MEM_function.R (line 28, column 18)
        R/MEM_function.R (line 30, column 18)
        R/MEM_function.R (line 33, column 22)
        R/MEM_function.R (line 36, column 22)
        R/MEM_function.R (line 39, column 22)
        R/MEM_function.R (line 43, column 18)
        R/MEM_function.R (line 45, column 20)
        R/MEM_function.R (line 46, column 23)
        R/MEM_function.R (line 46, column 65)
        R/MEM_function.R (line 47, column 23)
        R/MEM_function.R (line 49, column 21)
        R/MEM_function.R (line 51, column 29)
        R/MEM_function.R (line 53, column 28)
        R/MEM_function.R (line 55, column 27)
        R/MEM_function.R (line 57, column 24)
        R/MEM_function.R (line 59, column 14)
        R/MEM_function.R (line 60, column 18)
        R/MEM_function.R (line 63, column 26)
        R/MEM_function.R (line 65, column 26)
        R/MEM_function.R (line 67, column 26)
        R/MEM_function.R (line 68, column 26)
        R/MEM_function.R (line 71, column 30)
        R/MEM_function.R (line 74, column 26)
        R/MEM_function.R (line 76, column 18)
        R/MEM_function.R (line 78, column 18)
        R/MEM_function.R (line 79, column 17)
        R/MEM_function.R (line 80, column 24)
        R/MEM_function.R (line 81, column 15)
        R/MEM_function.R (line 82, column 14)
        R/MEM_function.R (line 83, column 15)
        R/MEM_function.R (line 84, column 12)
        R/MEM_function.R (line 85, column 12)
        R/MEM_function.R (line 86, column 12)
        R/MEM_function.R (line 87, column 12)
        R/MEM_function.R (line 90, column 18)
        R/MEM_function.R (line 91, column 28)
        R/MEM_function.R (line 95, column 13)
        R/MEM_function.R (line 96, column 20)
        R/MEM_function.R (line 97, column 20)
        R/MEM_function.R (line 98, column 13)
        R/MEM_function.R (line 104, column 21)
        R/MEM_function.R (line 105, column 16)
        R/MEM_function.R (line 106, column 16)
        R/MEM_function.R (line 109, column 22)
        R/MEM_function.R (line 110, column 16)
        R/MEM_function.R (line 111, column 16)
        R/MEM_function.R (line 114, column 17)
        R/MEM_function.R (line 115, column 24)
        R/MEM_function.R (line 116, column 24)
        R/MEM_function.R (line 117, column 17)
        R/MEM_function.R (line 124, column 19)
        R/MEM_function.R (line 127, column 19)
        R/MEM_function.R (line 130, column 19)
        R/MEM_function.R (line 133, column 20)
        R/MEM_function.R (line 134, column 20)
        R/MEM_function.R (line 136, column 13)
        R/MEM_function.R (line 142, column 14)
        R/MEM_function.R (line 143, column 16)
        R/MEM_function.R (line 149, column 26)
        R/MEM_function.R (line 151, column 19)
        R/MEM_function.R (line 152, column 20)
        R/MEM_function.R (line 154, column 23)
        R/MEM_function.R (line 155, column 19)
        R/MEM_function.R (line 156, column 19)
        R/MEM_function.R (line 157, column 20)
        R/MEM_function.R (line 159, column 23)
        R/MEM_function.R (line 160, column 19)
        R/MEM_function.R (line 161, column 19)
        R/MEM_function.R (line 162, column 20)
        R/MEM_function.R (line 165, column 21)
        R/MEM_function.R (line 166, column 21)
        R/MEM_function.R (line 175, column 40)
        R/MEM_RMSD.R (line 8, column 26)
        R/MEM_RMSD.R (line 9, column 18)
        R/MEM_RMSD.R (line 10, column 24)
        R/MEM_RMSD.R (line 13, column 27)
        R/MEM_RMSD.R (line 15, column 31)
        R/MEM_RMSD.R (line 18, column 27)
        R/MEM_RMSD.R (line 21, column 31)
        R/MEM_RMSD.R (line 24, column 36)
        R/MEM_RMSD.R (line 25, column 27)
        R/MEM_RMSD.R (line 26, column 27)
        R/MEM_RMSD.R (line 27, column 26)
        R/MEM_RMSD.R (line 28, column 26)
        R/MEM_RMSD.R (line 29, column 33)
        R/MEM_RMSD.R (line 31, column 37)
        R/MEM_RMSD.R (line 34, column 32)
        R/MEM_RMSD.R (line 35, column 38)
        R/MEM_RMSD.R (line 40, column 28)
        R/MEM_RMSD.R (line 42, column 28)
        R/MEM_RMSD.R (line 44, column 26)
        R/MEM_RMSD.R (line 46, column 30)
        R/MEM_RMSD.R (line 48, column 18)
        R/MEM_RMSD.R (line 50, column 24)
        R/MEM_RMSD.R (line 54, column 26)
        R/MEM_RMSD.R (line 55, column 26)
        R/MEM_RMSD.R (line 56, column 36)
        R/MEM_RMSD.R (line 57, column 33)
        R/MEM_RMSD.R (line 59, column 37)
        R/MEM_RMSD.R (line 61, column 32)
        R/MEM_RMSD.R (line 62, column 38)
        R/MEM_RMSD.R (line 66, column 31)
        R/MEM_RMSD.R (line 67, column 30)
        R/MEM_RMSD.R (line 70, column 19)
        R/MEM_RMSD.R (line 71, column 19)
        R/MEM_RMSD.R (line 72, column 21)
        R/MEM_RMSD.R (line 97, column 28)
        R/rename_markers.R (line 3, column 22)
        R/rename_markers.R (line 6, column 22)
        R/rename_markers.R (line 13, column 26)
        R/rename_markers.R (line 16, column 22)
        R/zero_reference.R (line 2, column 12)
        R/zero_reference.R (line 3, column 12)
        R/zero_reference.R (line 4, column 12)
        R/zero_reference.R (line 5, column 10)
        R/zero_reference.R (line 6, column 15)
        R/zero_reference.R (line 7, column 12)
    * WARNING: Avoid class membership checks with class() / is() and ==
      / !=; Use is(x, 'class') for S4 classes
      Found in files:
        MEM_function.R (line 10, column 24)
        MEM_function.R (line 14, column 24)
        MEM_function.R (line 14, column 58)
        MEM_function.R (line 14, column 89)
        MEM_function.R (line 20, column 24)
        MEM_function.R (line 29, column 24)
        MEM_function.R (line 34, column 31)
        MEM_function.R (line 34, column 62)
        MEM_RMSD.R (line 42, column 35)
* Checking parsed R code in R directory, examples, vignettes...
* Checking function lengths...
    * NOTE: Recommended function length <= 50 lines.
      There are 3 functions > 50 lines.
      The longest 5 functions are:
        build_heatmaps() (R/build_heatmaps.R, line 1): 329 lines
        MEM() (R/MEM_function.R, line 1): 180 lines
        MEM_RMSD() (R/MEM_RMSD.R, line 1): 128 lines
        create.labels.txt() (R/create_labels_txt.R, line 1): 46 lines
        create.labels() (R/create_labels.R, line 1): 46 lines
* Checking man page documentation...
* Checking package NEWS...
* Checking unit tests...
    * NOTE: Consider adding unit tests. We strongly encourage them. See
      http://bioconductor.org/developers/how-to/unitTesting-guidelines/.
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source,
  and vignette source...
    * NOTE: Consider shorter lines; 163 lines (9%) are > 80 characters
      long.
    First 6 lines:
      R/build_heatmaps.R:17         if (length(which(apply(heatmap_data, 1, f...
      R/build_heatmaps.R:33                 colorRampPalette(c("#A8C3F4", "#1...
      R/build_heatmaps.R:76         new_rownames = create.labels(MEM_vals_sca...
      R/build_heatmaps.R:77         new_rownames_txt = create.labels.txt(MEM_...
      R/build_heatmaps.R:130         if (length(which(apply(heatmap_data, 1, ...
      R/build_heatmaps.R:182         if (length(which(apply(heatmap_data, 1, ...
    * NOTE: Consider multiples of 4 spaces for line indents, 184
      lines(11%) are not.
    First 6 lines:
      R/build_heatmaps.R:3              cluster.MEM = "both",
      R/build_heatmaps.R:4              cluster.medians = "none",
      R/build_heatmaps.R:5              cluster.IQRs = "none",
      R/build_heatmaps.R:6              display.thresh = 1,
      R/build_heatmaps.R:7              output.files = FALSE,
      R/build_heatmaps.R:8              labels = FALSE,
    See http://bioconductor.org/developers/how-to/coding-style/
    See styler package: https://cran.r-project.org/package=styler as
      described in the BiocCheck vignette.
* Checking if package already exists in CRAN...
* Checking if new package already exists in Bioconductor...
* Checking for bioc-devel mailing list subscription...
    * ERROR: Maintainer must subscribe to the bioc-devel mailing list.
      Subscribe here: https://stat.ethz.ch/mailman/listinfo/bioc-devel
* Checking for support site registration...
    Maintainer is registered at support site.
    Package name is in support site watched tags.


Summary:
ERROR count: 1
WARNING count: 1
NOTE count: 7
For detailed information about these checks, see the BiocCheck
vignette, available at
https://bioconductor.org/packages/3.15/bioc/vignettes/BiocCheck/inst/doc/BiocCheck.html#interpreting-bioccheck-output
BiocCheck FAILED.

merida1 BUILD BIN output

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===============================

 R CMD BUILD

===============================

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=libdir cytoMEM_0.99.0.tar.gz'
>>>>>>> 

* installing *source* package ‘cytoMEM’ ...
** using staged installation
** R
** data
** 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 (cytoMEM)