Last updated on 2022-10-30 07:55:14 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.0 | ERROR | ||||
| r-devel-linux-x86_64-debian-gcc | 0.1.0 | 20.84 | 2.53 | 23.37 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.0 | 57.86 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.0 | 49.67 | ERROR | |||
| r-devel-windows-x86_64 | 0.1.0 | 45.00 | 138.00 | 183.00 | ERROR | |
| r-patched-linux-x86_64 | 0.1.0 | 23.45 | 3.44 | 26.89 | ERROR | |
| r-release-linux-x86_64 | 0.1.0 | 22.05 | 3.45 | 25.50 | ERROR | |
| r-release-macos-arm64 | 0.1.0 | 50.00 | NOTE | |||
| r-release-macos-x86_64 | 0.1.0 | 100.00 | NOTE | |||
| r-release-windows-x86_64 | 0.1.0 | 48.00 | 140.00 | 188.00 | ERROR | |
| r-oldrel-macos-arm64 | 0.1.0 | 76.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 0.1.0 | 69.00 | NOTE | |||
| r-oldrel-windows-ix86+x86_64 | 0.1.0 | 118.00 | 158.00 | 276.00 | ERROR |
Version: 0.1.0
Check: whether package can be installed
Result: ERROR
Installation failed.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.1.0
Check: whether package can be installed
Result: WARN
Found the following significant warnings:
harmony.cpp:211:80: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.1.0
Check: examples
Result: ERROR
Running examples in 'harmony-Ex.R' failed
The error most likely occurred in:
> ### Name: HarmonyMatrix
> ### Title: Main Harmony interface
> ### Aliases: HarmonyMatrix
>
> ### ** Examples
>
>
>
> ## By default, Harmony inputs a normalized gene expression matrix
> ## Not run:
> ##D harmony_embeddings <- HarmonyMatrix(exprs_matrix, meta_data, 'dataset')
> ## End(Not run)
>
> ## Harmony can also take a PCA embeddings matrix
> data(cell_lines_small)
> pca_matrix <- cell_lines_small$scaled_pcs
> meta_data <- cell_lines_small$meta_data
> harmony_embeddings <- HarmonyMatrix(pca_matrix, meta_data, 'dataset',
+ do_pca=FALSE)
Harmony 1/10
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Error in harmonyObj$cluster_cpp() :
element-wise pow(): incompatible matrix dimensions: 10x3 and 3x1
Calls: HarmonyMatrix -> harmonize -> cluster -> <Anonymous> -> .External
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64
Version: 0.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [9s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(harmony)
Loading required package: Rcpp
>
> test_check("harmony")
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• Seurat V3 not available (1)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_integration.R:5:1): (code run outside of `test_that()`) ─────────
<std::logic_error/C++Error/error/condition>
Error in `harmonyObj$cluster_cpp()`: element-wise pow(): incompatible matrix dimensions: 50x3 and 3x1
Backtrace:
▆
1. └─harmony::HarmonyMatrix(...) at test_integration.R:5:0
2. └─harmony:::harmonize(harmonyObj, max.iter.harmony, verbose)
3. └─harmony:::cluster(harmonyObj)
4. └─harmonyObj$cluster_cpp()
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.1.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'quickstart.Rmd' using rmarkdown
Quitting from lines 148-152 (quickstart.Rmd)
Error: processing vignette 'quickstart.Rmd' failed with diagnostics:
element-wise pow(): incompatible matrix dimensions: 79x3 and 3x1
--- failed re-building 'quickstart.Rmd'
SUMMARY: processing the following file failed:
'quickstart.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64
Version: 0.1.0
Check: installed package size
Result: NOTE
installed size is 6.9Mb
sub-directories of 1Mb or more:
doc 1.4Mb
libs 4.9Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 0.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [9s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(harmony)
Loading required package: Rcpp
>
> test_check("harmony")
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• Seurat V3 not available (1)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_integration.R:5'): (code run outside of `test_that()`) ─────────
<std::logic_error/C++Error/error/condition>
Error in `harmonyObj$cluster_cpp()`: element-wise pow(): incompatible matrix dimensions: 50x3 and 3x1
Backtrace:
▆
1. └─harmony::HarmonyMatrix(...) at test_integration.R:5:0
2. └─harmony:::harmonize(harmonyObj, max.iter.harmony, verbose)
3. └─harmony:::cluster(harmonyObj)
4. └─harmonyObj$cluster_cpp()
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-x86_64
Version: 0.1.0
Check: running examples for arch ‘i386’
Result: ERROR
Running examples in 'harmony-Ex.R' failed
The error most likely occurred in:
> ### Name: HarmonyMatrix
> ### Title: Main Harmony interface
> ### Aliases: HarmonyMatrix
>
> ### ** Examples
>
>
>
> ## By default, Harmony inputs a normalized gene expression matrix
> ## Not run:
> ##D harmony_embeddings <- HarmonyMatrix(exprs_matrix, meta_data, 'dataset')
> ## End(Not run)
>
> ## Harmony can also take a PCA embeddings matrix
> data(cell_lines_small)
> pca_matrix <- cell_lines_small$scaled_pcs
> meta_data <- cell_lines_small$meta_data
> harmony_embeddings <- HarmonyMatrix(pca_matrix, meta_data, 'dataset',
+ do_pca=FALSE)
Harmony 1/10
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Error in harmonyObj$cluster_cpp() :
element-wise pow(): incompatible matrix dimensions: 10x3 and 3x1
Calls: HarmonyMatrix -> harmonize -> cluster -> <Anonymous> -> .External
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 0.1.0
Check: running examples for arch ‘x64’
Result: ERROR
Running examples in 'harmony-Ex.R' failed
The error most likely occurred in:
> ### Name: HarmonyMatrix
> ### Title: Main Harmony interface
> ### Aliases: HarmonyMatrix
>
> ### ** Examples
>
>
>
> ## By default, Harmony inputs a normalized gene expression matrix
> ## Not run:
> ##D harmony_embeddings <- HarmonyMatrix(exprs_matrix, meta_data, 'dataset')
> ## End(Not run)
>
> ## Harmony can also take a PCA embeddings matrix
> data(cell_lines_small)
> pca_matrix <- cell_lines_small$scaled_pcs
> meta_data <- cell_lines_small$meta_data
> harmony_embeddings <- HarmonyMatrix(pca_matrix, meta_data, 'dataset',
+ do_pca=FALSE)
Harmony 1/10
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Error in harmonyObj$cluster_cpp() :
element-wise pow(): incompatible matrix dimensions: 10x3 and 3x1
Calls: HarmonyMatrix -> harmonize -> cluster -> <Anonymous> -> .External
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 0.1.0
Check: running tests for arch ‘i386’
Result: ERROR
Running 'testthat.R' [9s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(harmony)
Loading required package: Rcpp
>
> test_check("harmony")
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
== Skipped tests ===============================================================
* Seurat V3 not available (1)
== Failed tests ================================================================
-- Error (test_integration.R:5:1): (code run outside of `test_that()`) ---------
<std::logic_error/C++Error/error/condition>
Error in `harmonyObj$cluster_cpp()`: element-wise pow(): incompatible matrix dimensions: 50x3 and 3x1
Backtrace:
x
1. \-harmony::HarmonyMatrix(...) at test_integration.R:5:0
2. \-harmony:::harmonize(harmonyObj, max.iter.harmony, verbose)
3. \-harmony:::cluster(harmonyObj)
4. \-harmonyObj$cluster_cpp()
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 0.1.0
Check: running tests for arch ‘x64’
Result: ERROR
Running 'testthat.R' [10s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(harmony)
Loading required package: Rcpp
>
> test_check("harmony")
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
== Skipped tests ===============================================================
* Seurat V3 not available (1)
== Failed tests ================================================================
-- Error (test_integration.R:5:1): (code run outside of `test_that()`) ---------
<std::logic_error/C++Error/error/condition>
Error in `harmonyObj$cluster_cpp()`: element-wise pow(): incompatible matrix dimensions: 50x3 and 3x1
Backtrace:
x
1. \-harmony::HarmonyMatrix(...) at test_integration.R:5:0
2. \-harmony:::harmonize(harmonyObj, max.iter.harmony, verbose)
3. \-harmony:::cluster(harmonyObj)
4. \-harmonyObj$cluster_cpp()
[ FAIL 1 | WARN 0 | SKIP 1 | PASS 0 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building 'quickstart.Rmd' using rmarkdown
Quitting from lines 148-152 (quickstart.Rmd)
Error: processing vignette 'quickstart.Rmd' failed with diagnostics:
element-wise pow(): incompatible matrix dimensions: 79x3 and 3x1
--- failed re-building 'quickstart.Rmd'
SUMMARY: processing the following file failed:
'quickstart.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64