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[MuDataSeurat] Install error #21

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jpark27 opened this issue Mar 3, 2025 · 1 comment
Open

[MuDataSeurat] Install error #21

jpark27 opened this issue Mar 3, 2025 · 1 comment

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@jpark27
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jpark27 commented Mar 3, 2025

Dear MuDataSeurat team,

Hi, all! I am trying to install MuDataSeurat through remotes/devtools/local but all come across with following error. Can you help me out whether there's some issue on the package?

devtools::install_local("/project/simmons_hts/jpark/0_tools/MuDataSeurat")
These packages have more recent versions available.
It is recommended to update all of them.
Which would you like to update?

1: All
2: CRAN packages only
3: None
4: jsonlite (1.8.9 -> 1.9.0 ) [CRAN]
5: tinytex (0.54 -> 0.56 ) [CRAN]
6: xfun (0.50 -> 0.51 ) [CRAN]
7: curl (6.2.0 -> 6.2.1 ) [CRAN]
8: data.table (1.16.4 -> 1.17.0) [CRAN]
9: zoo (1.8-12 -> 1.8-13) [CRAN]
10: spam (2.11-0 -> 2.11-1) [CRAN]
11: uwot (0.2.2 -> 0.2.3 ) [CRAN]
12: reticulate (1.40.0 -> 1.41.0) [CRAN]
13: hdf5r (1.3.11 -> 1.3.12) [CRAN]

Enter one or more numbers, or an empty line to skip updates:
── R CMD build ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/tmp/RtmpS48If7/file100063617daa2/MuDataSeurat/DESCRIPTION’ (352ms)
─ preparing ‘MuDataSeurat’:
✔ checking DESCRIPTION meta-information ...
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
Omitted ‘LazyData’ from DESCRIPTION
─ building ‘MuDataSeurat_0.0.0.9000.tar.gz’

Installing package into ‘/ceph/home/j/jpark/R/x86_64-pc-linux-gnu-library/4.4’
(as ‘lib’ is unspecified)

  • installing source package ‘MuDataSeurat’ ...
    ** using staged installation
    ** R
    ** byte-compile and prepare package for lazy loading
    Error in packageVersion(getPackageName()) :
    could not find function "packageVersion"
    Error: unable to load R code in package ‘MuDataSeurat’
    Execution halted
    ERROR: lazy loading failed for package ‘MuDataSeurat’
  • removing ‘/ceph/home/j/jpark/R/x86_64-pc-linux-gnu-library/4.4/MuDataSeurat’
    Warning message:
    In i.p(...) :
    installation of package ‘/tmp/RtmpS48If7/file1000632f58bfc1/MuDataSeurat_0.0.0.9000.tar.gz’ had non-zero exit status
@gtca
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gtca commented Mar 6, 2025

Hey @jpark27,

It seems to complain about packageVersion() not being available. Does it happen in RStudio? Is this function available in vanilla R?
I cannot reproduce this when using R CLI.

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