ecopcr problem
I have followed the instructions from wolf tutorial and import the embl and taxonomy files as commands listed below:
obi import --embl /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/EMBL/ /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/embl_refs
obi import --taxdump /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/taxdump.tar.gz /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/taxonomy/my_tax
Both imports were successful. However, I failed for the ecopcr process: [mingfei2@compute-7-1 US_Transect_Plant]$ obi ecopcr -e 3 -l 50 -L 500 -F CGAAATCGGTAGACGCTACG -R CCATTGAGTCTCTGCACCTATC –taxonomy /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/taxonomy/my_tax /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/embl_refs /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/trnL_refs
error: unrecognized arguments: /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/embl_refs /home/a-m/mingfei2/Mingfei/Fluidigm/US_Transect_Plant/us_transect/trnL_refs
Here's the result of obi ls and all folders in my us_transect folder:
[mingfei2@compute-7-1 US_Transect_Plant]$ obi ls us_transect 2021-02-23 09:10:21,530 [ls : INFO ] obi ls
DMS name: us_transect
Views:
embl_refs: Date created: Mon Feb 22 21:10:45 2021 ; Line count: 3835288
Taxonomies:
my_tax
[mingfei2@compute-7-1 US_Transect_Plant]$ cd us_transect.obidms/ [mingfei2@compute-7-1 us_transect.obidms]$ ls COUNT.obicol NUC_SEQ.obicol TAXID.obicol VIEWS DEFINITION.obicol OBIBLOB_INDEXERS TAXONOMY ID.obicol organism.obicol us_transect_infos
Any helps would be greatly appreciated.
Thanks, Mingfei