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Failure to annotate (KeyError: 'partial') #95
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Hi I seem that the lasting stage did not complete or one of the stages did not Thanks On Tue, Sep 20, 2016 at 6:29 AM, jessieluolab notifications@github.com
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HI Kishori, Thanks for your quick response. Please kindly find the test case input and Please note that the metapathways was installed in our Fedora22 linux Thanks again for your help! Best, On Tue, Sep 20, 2016 at 9:30 PM, kishori82 notifications@github.com wrote:
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Hi Yongjie, I did not see any attachment with your email. Thanks On Tue, Sep 20, 2016 at 11:34 AM, jessieluolab notifications@github.com
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A new version of MP will be available shortly and address this issue |
Dear Admin,
Could you please help me out? It seems the *.gff file couldn't be generated due to the annotation error (KeyError: 'partial').
Thanks!
PROCESSING INPUT myproject/input//test_sample2.fasta [STEPS BLOCK 2]
COMPUTING REFSCORES FOR BITSCORE ..... Redo Success!
PARSING LAST OUTPUT FOR metacyc-v5-2011-10-21 ..... Redo Success!
PARSING LAST OUTPUT FOR CAZY_2014_09_04 ..... Redo Success!
PARSING LAST OUTPUT FOR COG_2013-12-27 ..... Redo Success!
SCANNING FOR tRNA USING tRNA-Scan ..... Already Computed!
ANNOTATE ORFS
Processing database : metacyc-v5-2011-10-21
Processing database : CAZY_2014_09_04
Processing database : COG_2013-12-27
ERROR : Failure to annotate in contig test_sample2_54
Traceback (most recent call last):
File "/home/yhuang/software/MetaPathway/metapathways2-2.5.2/libs/python_scripts/MetaPathways_annotate_fast.py", line 291, in write_annotation_for_orf
attributes += ";" + "partial="+orf_dictionary[contig][candidate_orf_pos]['partial']
KeyError: 'partial'
None
..... Redo Success!
PATHOLOGIC INPUT ..... Skipping [NO INPUT]!
CREATING REPORT FILE FOR ORF ANNOTATION ..... Skipping [NO INPUT]!
RUNNING PATHOLOGIC ..... Skipping [NO INPUT]!
RUNNING RPKM_CALCULATION ..... Skipping [NO INPUT]!
***********
INFO : FINISHED PROCESSING THE SAMPLES
THE END
***********
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