On 12/09/2016 03:20 PM, Michael Love wrote:
hi,
After checking out the data_store version, I get an svn error "access
forbidden". Can you remind me the proper steps (I tried to following
variations on the Source Code instructions for experiment packages)?
Hi Mike - please try again; there seems to have been a permissions
problem. Martin
love:test/ $ svn co
https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/data_store/tximportData
A tximportData/inst
A tximportData/inst/extdata
A tximportData/inst/extdata/cufflinks
A tximportData/inst/extdata/cufflinks/isoforms.count_table
A tximportData/inst/extdata/cufflinks/isoforms.attr_table
A tximportData/inst/extdata/cufflinks/isoforms.fpkm_table
A tximportData/inst/extdata/rsem
A tximportData/inst/extdata/rsem/ERR188329
A tximportData/inst/extdata/rsem/ERR188329/ERR188329.genes.results
A tximportData/inst/extdata/rsem/ERR188356
A tximportData/inst/extdata/rsem/ERR188356/ERR188356.genes.results
A tximportData/inst/extdata/rsem/ERR188088
A tximportData/inst/extdata/rsem/ERR188088/ERR188088.genes.results
A tximportData/inst/extdata/rsem/ERR188288
A tximportData/inst/extdata/rsem/ERR188288/ERR188288.genes.results
A tximportData/inst/extdata/rsem/ERR188297
A tximportData/inst/extdata/rsem/ERR188297/ERR188297.genes.results
A tximportData/inst/extdata/rsem/ERR188021
A tximportData/inst/extdata/rsem/ERR188021/ERR188021.genes.results
A tximportData/inst/extdata/tx2gene.csv
A tximportData/inst/extdata/salmon
A tximportData/inst/extdata/salmon/ERR188329
A tximportData/inst/extdata/salmon/ERR188329/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188329/quant.sf
A tximportData/inst/extdata/salmon/ERR188356
A tximportData/inst/extdata/salmon/ERR188356/quant.sf
A tximportData/inst/extdata/salmon/ERR188356/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188088
A tximportData/inst/extdata/salmon/ERR188088/quant.sf
A tximportData/inst/extdata/salmon/ERR188088/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188288
A tximportData/inst/extdata/salmon/ERR188288/quant.sf
A tximportData/inst/extdata/salmon/ERR188288/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188297
A tximportData/inst/extdata/salmon/ERR188297/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188297/quant.sf
A tximportData/inst/extdata/salmon/ERR188021
A tximportData/inst/extdata/salmon/ERR188021/cmd_info.json
A tximportData/inst/extdata/salmon/ERR188021/quant.sf
A tximportData/inst/extdata/kallisto
A tximportData/inst/extdata/kallisto/ERR188329
A tximportData/inst/extdata/kallisto/ERR188329/run_info.json
A tximportData/inst/extdata/kallisto/ERR188329/abundance.tsv
A tximportData/inst/extdata/kallisto/ERR188356
A tximportData/inst/extdata/kallisto/ERR188356/run_info.json
A tximportData/inst/extdata/kallisto/ERR188356/abundance.tsv
A tximportData/inst/extdata/kallisto/ERR188088
A tximportData/inst/extdata/kallisto/ERR188088/run_info.json
A tximportData/inst/extdata/kallisto/ERR188088/abundance.tsv
A tximportData/inst/extdata/kallisto/ERR188288
A tximportData/inst/extdata/kallisto/ERR188288/abundance.tsv
A tximportData/inst/extdata/kallisto/ERR188288/run_info.json
A tximportData/inst/extdata/kallisto/ERR188297
A tximportData/inst/extdata/kallisto/ERR188297/run_info.json
A tximportData/inst/extdata/kallisto/ERR188297/abundance.tsv
A tximportData/inst/extdata/kallisto/ERR188021
A tximportData/inst/extdata/kallisto/ERR188021/run_info.json
A tximportData/inst/extdata/kallisto/ERR188021/abundance.tsv
A tximportData/inst/extdata/sailfish
A tximportData/inst/extdata/sailfish/ERR188329
A tximportData/inst/extdata/sailfish/ERR188329/cmd_info.json
A tximportData/inst/extdata/sailfish/ERR188329/quant.sf
A tximportData/inst/extdata/sailfish/ERR188356
A tximportData/inst/extdata/sailfish/ERR188356/quant.sf
A tximportData/inst/extdata/sailfish/ERR188356/cmd_info.json
A tximportData/inst/extdata/sailfish/ERR188088
A tximportData/inst/extdata/sailfish/ERR188088/cmd_info.json
A tximportData/inst/extdata/sailfish/ERR188088/quant.sf
A tximportData/inst/extdata/sailfish/ERR188288
A tximportData/inst/extdata/sailfish/ERR188288/quant.sf
A tximportData/inst/extdata/sailfish/ERR188288/cmd_info.json
A tximportData/inst/extdata/sailfish/ERR188297
A tximportData/inst/extdata/sailfish/ERR188297/quant.sf
A tximportData/inst/extdata/sailfish/ERR188297/cmd_info.json
A tximportData/inst/extdata/sailfish/ERR188021
A tximportData/inst/extdata/sailfish/ERR188021/quant.sf
A tximportData/inst/extdata/sailfish/ERR188021/cmd_info.json
A tximportData/inst/extdata/samples.txt
A tximportData/inst/extdata/samples_extended.txt
Checked out revision 4006.
love:tximportData/ $ cd inst/extdata
[15:06:02]
Then I add new files:
love:extdata/ $ svn add kallisto_h5
[15:06:19]
A kallisto_h5
A kallisto_h5/ERR188329
A kallisto_h5/ERR188329/run_info.json
A (bin) kallisto_h5/ERR188329/abundance.h5
A kallisto_h5/ERR188356
A kallisto_h5/ERR188356/run_info.json
A (bin) kallisto_h5/ERR188356/abundance.h5
A kallisto_h5/ERR188088
A kallisto_h5/ERR188088/run_info.json
A (bin) kallisto_h5/ERR188088/abundance.h5
A kallisto_h5/ERR188288
A kallisto_h5/ERR188288/run_info.json
A (bin) kallisto_h5/ERR188288/abundance.h5
A kallisto_h5/ERR188297
A (bin) kallisto_h5/ERR188297/abundance.h5
A kallisto_h5/ERR188297/run_info.json
A kallisto_h5/ERR188021
A kallisto_h5/ERR188021/run_info.json
A (bin) kallisto_h5/ERR188021/abundance.h5
love:extdata/ $ svn commit -m "add kallisto HDF5 files"
[15:06:27]
Adding kallisto_h5
svn: E195023: Commit failed (details follow):
svn: E195023: Changing directory
'/Users/love/bioc/test/tximportData/inst/extdata/kallisto_h5' is
forbidden by the server
svn: E175013: Access to
'/bioc-data/!svn/txr/4006-1/trunk/experiment/data_store/tximportData/inst/extdata/kallisto_h5'
forbidden
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