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jtamames / SqueezeMeta

A complete pipeline for metagenomic analysis
GNU General Public License v3.0
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SQMtools run in R #839

Open AntonioPuriel opened 1 month ago

AntonioPuriel commented 1 month ago
metagenomic715_2 = loadSQM('E:/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/', engine = 'data.table' ) Loading total reads Loading orfs table... -------------------------------------------------- ================================================== abundances... sequences...
================================================== 
taxonomy...

|--------------------------------------------------| |==================================================| Error: cannot allocate vector of size 765.7 Mb In addition: Warning message: In loadSQM("E:/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/", : Your project was created with SqueezeMeta v1.5, while this is SQMtools v1.6.3. You can ignore this message if things are working fine for you, but if you experience any issue consider using the right version of SQMtools for this project

I don't know what could have gone wrong, if the files were copied correctly. I would appreciate your help

fpusan commented 1 month ago

You seem to be running out of memory.

AntonioPuriel commented 1 month ago

ok, is it possible to run them from a zip format on the local computer, as the files are very heavy and therefore run out of memory. My other option is to run R from the cluster.

fpusan commented 1 month ago

You can run them from the zip formatted file, but this won't affect the size when loaded in memory.