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This page was generated on 2025-03-02 09:34 -0500 (Sun, 02 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 869 |
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| Package 201/217 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
Hai Fang
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | ERROR | skipped | |||||||
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To the developers/maintainers of the supraHex package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: supraHex |
| Version: 1.45.1 |
| Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data supraHex |
| StartedAt: 2025-03-02 07:29:55 -0500 (Sun, 02 Mar 2025) |
| EndedAt: 2025-03-02 07:30:04 -0500 (Sun, 02 Mar 2025) |
| EllapsedTime: 9.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data supraHex ### ############################################################################## ############################################################################## * checking for file ‘supraHex/DESCRIPTION’ ... OK * preparing ‘supraHex’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘supraHex_vignettes.Rnw’ using Sweave Loading required package: hexbin Warning in fun(libname, pkgname) : Package 'supraHex' is deprecated and will be removed from Bioconductor version 3.22 Start at 2025-03-02 07:30:01.810894 First, define topology of a map grid (2025-03-02 07:30:01.811625)... Second, initialise the codebook matrix (169 X 6) using 'linear' initialisation, given a topology and input data (2025-03-02 07:30:01.811625)... Third, get training at the rough stage (2025-03-02 07:30:01.823747)... 1 out of 2 (2025-03-02 07:30:01.825691) updated (2025-03-02 07:30:01.847552) 2 out of 2 (2025-03-02 07:30:01.847847) updated (2025-03-02 07:30:01.869139) Fourth, get training at the finetune stage (2025-03-02 07:30:01.869432)... 1 out of 7 (2025-03-02 07:30:01.871037) updated (2025-03-02 07:30:01.893635) 2 out of 7 (2025-03-02 07:30:01.893861) updated (2025-03-02 07:30:01.905953) 3 out of 7 (2025-03-02 07:30:01.906179) updated (2025-03-02 07:30:01.923223) 4 out of 7 (2025-03-02 07:30:01.923447) updated (2025-03-02 07:30:01.940758) 5 out of 7 (2025-03-02 07:30:01.941024) updated (2025-03-02 07:30:01.962235) 6 out of 7 (2025-03-02 07:30:01.9625) updated (2025-03-02 07:30:01.974837) 7 out of 7 (2025-03-02 07:30:01.97506) updated (2025-03-02 07:30:01.987205) Next, identify the best-matching hexagon/rectangle for the input data (2025-03-02 07:30:01.987467)... Finally, append the response data (hits and mqe) into the sMap object (2025-03-02 07:30:01.999305)... Below are the summaries of the training results: dimension of input data: 1000x6 xy-dimension of map grid: xdim=15, ydim=15, r=8 grid lattice: hexa grid shape: suprahex dimension of grid coord: 169x2 initialisation method: linear dimension of codebook matrix: 169x6 mean quantization error: 2.08138691777223 Below are the details of trainology: training algorithm: batch alpha type: invert training neighborhood kernel: gaussian trainlength (x input data length): 2 at rough stage; 7 at finetune stage radius (at rough stage): from 4 to 1 radius (at finetune stage): from 1 to 1 End at 2025-03-02 07:30:02.301727 Runtime in total is: 1 secs Warning: The `path` argument of `write_delim()` is deprecated as of readr 1.4.0. ℹ Please use the `file` argument instead. ℹ The deprecated feature was likely used in the supraHex package. Please report the issue to the authors. Error: processing vignette 'supraHex_vignettes.Rnw' failed with diagnostics: chunk 18 Error in igraph::as_data_frame(., what = "edge") : `arg` must be one of "edges", "vertices", or "both", not "edge". ℹ Did you mean "edges"? --- failed re-building ‘supraHex_vignettes.Rnw’ SUMMARY: processing the following file failed: ‘supraHex_vignettes.Rnw’ Error: Vignette re-building failed. Execution halted