cellranger testrun --id=tiny show KeyError: 'pca'

[levinit]

detail

md5sum cellranger-6.1.2.tar.gz 310d4453acacf0eec52e76aded14024c cellranger-6.1.2.tar.gz

tar xzvf cellranger-6.1.2.tar.gz 
cd cellranger-6.1.2 

then

$ cellranger testrun --id=tiny Martian Runtime - v4.0.6 2021-11-19 10:31:10 [runtime] Reattaching in local mode. Serving UI at http://c01:41168?auth=ogEdyEX2rxZTw9U1V-vLxPLf1JHMYviu9f3L3Y5juSU

2021-11-19 10:31:12 [runtime] (reset-partial) ID.tiny.SC_RNA_COUNTER_CS.SC_MULTI_CORE.MULTI_REPORTER.SUMMARIZE_REPORTS.fork0.chnk0 2021-11-19 10:31:12 [runtime] Found orphaned local stage: ID.tiny.SC_RNA_COUNTER_CS.SC_MULTI_CORE.MULTI_REPORTER.SUMMARIZE_REPORTS 2021-11-19 10:31:14 [runtime] (split_complete) ID.tiny.SC_RNA_COUNTER_CS.SC_MULTI_CORE.MULTI_REPORTER.SUMMARIZE_REPORTS 2021-11-19 10:31:14 [runtime] (run:local) ID.tiny.SC_RNA_COUNTER_CS.SC_MULTI_CORE.MULTI_REPORTER.SUMMARIZE_REPORTS.fork0.chnk0.main 2021-11-19 10:31:20 [runtime] (failed) ID.tiny.SC_RNA_COUNTER_CS.SC_MULTI_CORE.MULTI_REPORTER.SUMMARIZE_REPORTS

[error] Pipestance failed. Error log at: tiny/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_REPORTER/SUMMARIZE_REPORTS/fork0/chnk0-u6578970c70/_errors

Log message: Traceback (most recent call last): File "/share/home/lmy/cellranger-6.1.2/external/martian/adapters/python/martian_shell.py", line 662, in _main stage.main() File "/share/home/lmy/cellranger-6.1.2/external/martian/adapters/python/martian_shell.py", line 621, in main self._run(lambda: self._module.main(args, outs)) File "/share/home/lmy/cellranger-6.1.2/external/martian/adapters/python/martian_shell.py", line 592, in _run cmd() File "/share/home/lmy/cellranger-6.1.2/external/martian/adapters/python/martian_shell.py", line 621, in self._run(lambda: self._module.main(args, outs)) File "/share/home/lmy/cellranger-6.1.2/mro/rna/stages/counter/summarize_reports/init.py", line 72, in main sample_data = cr_webshim.load_sample_data(sample_properties, sample_data_paths) File "/share/home/lmy/cellranger-6.1.2/lib/python/cellranger/webshim/common.py", line 748, in load_sample_data return SampleData(sample_properties, sample_data_paths, plot_preprocess) File "/share/home/lmy/cellranger-6.1.2/lib/python/cellranger/webshim/data.py", line 89, in init self.analyses, self.original_cluster_sizes = load_analyses( File "/share/home/lmy/cellranger-6.1.2/lib/python/cellranger/webshim/data.py", line 305, in load_analyses analyses = [cr_sg_analysis.SingleGenomeAnalysis.load_default_format(base_dir, "pca")] File "/share/home/lmy/cellranger-6.1.2/lib/python/cellranger/analysis/singlegenome.py", line 242, in load_default_format return SingleGenomeAnalysis.load_h5(h5_file_path, method) File "/share/home/lmy/cellranger-6.1.2/lib/python/cellranger/analysis/singlegenome.py", line 173, in load_h5 group = f.root._v_groups[grp] File "/share/home/lmy/cellranger-6.1.2/external/anaconda/lib/python3.8/site-packages/tables/misc/proxydict.py", line 33, in getitem raise KeyError(key) KeyError: 'pca'

Waiting 6 seconds for UI to do final refresh. Pipestance failed. Use --noexit option to keep UI running after failure.

2021-11-19 10:31:26 Shutting down.

[evolvedmicrobe]

For quick help on this, please an email to support@10xgenomics.com referencing this issue.

[levinit]

solved it. run testrun in a dir mounted via glusterfs , this problem occur, now I run it in a dir mounted via NFS, it works.