Comments (14)
erzakiev
commented on July 19, 2024
2
to install specifically the gdata v. 2.19 (last v before they removed the function)
packageurl <- "https://cran.r-project.org/src/contrib/Archive/gdata/gdata_2.19.0.tar.gz"
install.packages(packageurl, repos=NULL, type="source")from readwriter.
ahoffrichter
commented on July 19, 2024
1
Hmm yes, I have '3.0.0'
Ok, thanks for your help. I'll try the quick fix for now.
Sorry for the inconvenience.
Quick fix worked!
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vertesy
commented on July 19, 2024
Hey Anne,
Sounds like that either:
1) Some of my dependcies are updated and now broke, or
2) I did Not properly declare the dependencies for this package.
Let me see
Abel
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ahoffrichter
commented on July 19, 2024
Hi Abel,
thanks! In case you need more info on my setup, here the sessionInfo()
> sessionInfo()
R version 4.3.1 (2023-06-16)
Platform: x86_64-apple-darwin20 (64-bit)
Running under: macOS Sonoma 14.0
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: Europe/Berlin
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] miniUI_0.1.1.1 compiler_4.3.1 crayon_1.5.2 promises_1.2.1 Rcpp_1.0.11 stringr_1.5.0 callr_3.7.3
[8] later_1.3.1 fastmap_1.1.1 mime_0.12 R6_2.5.1 curl_5.1.0 htmlwidgets_1.6.2 desc_1.4.2
[15] profvis_0.3.8 rprojroot_2.0.3 shiny_1.7.5.1 rlang_1.1.1 cachem_1.0.8 stringi_1.7.12 httpuv_1.6.11
[22] fs_1.6.3 pkgload_1.3.3 memoise_2.0.1 cli_3.6.1 magrittr_2.0.3 ps_1.7.5 digest_0.6.33
[29] processx_3.8.2 rstudioapi_0.15.0 xtable_1.8-4 remotes_2.4.2.1 devtools_2.4.5 lifecycle_1.0.3 prettyunits_1.2.0
[36] vctrs_0.6.4 glue_1.6.2 urlchecker_1.0.1 sessioninfo_1.2.2 pkgbuild_1.4.2 purrr_1.0.2 usethis_2.2.2
[43] tools_4.3.1 ellipsis_0.3.2 htmltools_0.5.6.1
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vertesy
commented on July 19, 2024
It completes on my end w/o error:
> devtools::install_github(repo = "vertesy/ReadWriter", upgrade = F)
Downloading GitHub repo vertesy/ReadWriter@HEAD
── R CMD build ──────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/_2/h3dpbqvx5ydf6d3y8gxh4rl00000gq/T/RtmpHrEThg/remotes3cab84e8542/vertesy-ReadWriter-8dab590/DESCRIPTION’ (395ms)
─ preparing ‘ReadWriter’:
✔ checking DESCRIPTION meta-information ...
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘ReadWriter_0.3.0.tar.gz’
Installing package into ‘/Users/abel.vertesy/Library/R/x86_64/4.3/library’
(as ‘lib’ is unspecified)
[1] "Loading Abel's .Rprofile"
Loading required package: colorout
* installing *source* package ‘ReadWriter’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
[1] "Loading Abel's .Rprofile"
Loading required package: colorout
** help
*** installing help indices
** building package indices
[1] "Loading Abel's .Rprofile"
Loading required package: colorout
** testing if installed package can be loaded from temporary location
[1] "Loading Abel's .Rprofile"
Loading required package: colorout
** testing if installed package can be loaded from final location
[1] "Loading Abel's .Rprofile"
Loading required package: colorout
** testing if installed package keeps a record of temporary installation path
* DONE (ReadWriter)from readwriter.
vertesy
commented on July 19, 2024
I know added
, "Depends" = "Stringendo, gdata" so it should be ok now.
Could you please try?
Since I can't reproduce the error, its hard to troubleshoot.
If still not works than manually install and require gdata.
Please let me know.
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ahoffrichter
commented on July 19, 2024
Unfortunately I still get the same error:
> devtools::install_github(repo = "vertesy/ReadWriter", upgrade = F)
Using github PAT from envvar GITHUB_PAT
Downloading GitHub repo vertesy/ReadWriter@HEAD
── R CMD build ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/2x/pqn42dhx1392f4w2zfkjg0j80000gn/T/RtmpnRCOGA/remotes58b247ca558/vertesy-ReadWriter-5257388/DESCRIPTION’ ...
─ preparing ‘ReadWriter’:
✔ checking DESCRIPTION meta-information ...
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘ReadWriter_0.3.1.tar.gz’
* installing *source* package ‘ReadWriter’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Error: object ‘read.xls’ is not exported by 'namespace:gdata'
Execution halted
ERROR: lazy loading failed for package ‘ReadWriter’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/ReadWriter’
Warning message:
In i.p(...) :
installation of package ‘/var/folders/2x/pqn42dhx1392f4w2zfkjg0j80000gn/T//RtmpnRCOGA/file58b734b471e/ReadWriter_0.3.1.tar.gz’ had non-zero exit status
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ahoffrichter
commented on July 19, 2024
Is it a possibility to add manually read.xlsx to the NAMESPACE file of gdata? I had a look into it and read.xlsx does not appear in the "export" section.
(This is the first time I had a look into this kind of file, so I really don't know if this is an option).
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vertesy
commented on July 19, 2024
Hey,
No. There is no read.xlsx in gdata. Only read.xls (wo x)
The ReadWriter code does not contain a reference to read.xlsx.
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vertesy
commented on July 19, 2024
if you require(gdata), does gdata::read.xls print the code?
Sorry for the ongoing trouble.
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ahoffrichter
commented on July 19, 2024
Hey,
ah sorry, I meanr read.xls.
When I run the suggested code I get the Error:
Error: 'read.xls' is not an exported object from 'namespace:gdata'
So it doesn't seem to be in there. Do you think re-installing gdata might help.
thanks for your effort!
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vertesy
commented on July 19, 2024
Hmm it seems that they removed it from gdata
packageVersion('gdata')
[1] ‘2.19.0’
has read.xls
but 3.0 does not. Damn.
I have ‘2.19.0’
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vertesy
commented on July 19, 2024
quick fix, install 2.19
long fix, I need to find a new dependency
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vertesy
commented on July 19, 2024
side note: gdata is not anymore a dependency, only imports but this does not resolve the issue above.
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Related Issues (12)
- To Do
- Wiki
- Resources
- Package errors HOT 1
- read.simple.tsv should return a DF not a tibble
- Broken dependency - read.xls is not part of gdata package anymore HOT 4
- Error in write.simple(input_df = deps) : object 'suffix' not found
- ReadWriter functions only work after require(ReadWriter)
- Migrate to depend on new helper function FirstCol2RowNames >>> column.2.row.names HOT 1
- column.2.row.names in read.simple.csv HOT 1
- write.simple.tsv should have background compression as a feature
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