SamSPECTRAL 1.29.0
Habil Zare
| Snapshot Date: 2017-03-03 17:15:47 -0500 (Fri, 03 Mar 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/SamSPECTRAL | | Last Changed Rev: 122712 / Revision: 127142 | | Last Changed Date: 2016-10-17 15:10:43 -0400 (Mon, 17 Oct 2016) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | ERROR | skipped | | |
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | ERROR | skipped | skipped | |
| toluca2 | Mac OS X Mavericks (10.9.5) / x86_64 | OK | ERROR | skipped | skipped | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | [ ERROR ] | skipped | skipped | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SamSPECTRAL
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* checking for file ‘SamSPECTRAL/DESCRIPTION’ ... OK
* preparing ‘SamSPECTRAL’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
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SamSPECTRAL started at: 2017-03-03 16:34:48
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90003
^^^^^^^^^^^^^^ Number of original points and clustering dimentionality.
Faithful sampling...
2017-03-03 16:34:48
We assume that the points are in a totaly random order.
Any position related order may cause problem.
neighbourhood = 0.0346680637175317
696
^--------^ communities have been build up.
neighbourhood is changed to: 0.0213022550946644
1553
^--------^ communities have been build up.
But just
......>> 1553 are left as high populated ones.
epsilon= 0.000977517106549336
4.18288898468018
Conductance computation...
2017-03-03 16:34:53
sigma = 200
1.28602695465088
2017-03-03 16:34:54
sigma = 200
Computing eigenspace...
2017-03-03 16:34:54
3 communities are considered as isolated outliers.
Minimum degree (sum of edges): 0.00316227766016838
2017-03-03 16:35:14
number.of.clusters is artificially forced to be >= 15
number.of.clusters is automatically calculated to be:
----------------------------------------------------> 15
Runing kmeans...
Error: processing vignette 'Clustering_by_SamSPECTRAL.Rnw' failed with diagnostics:
chunk 1 (label = f_example)
Error in validObject(.Object) :
invalid class “ClusteringResult” object: invalid object for slot "eigen.space" in class "ClusteringResult": got class "eigen", should be or extend class "list"
Execution halted