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  • k_a_r_o_l
    Member
    • Mar 2014
    • 18
    #1

    Problem while loading BIOM file in STAMP

    Hello,

    When I am loading my BIOM file in STAMP everything goes well and I am able to generate .spf file but when I want to open this file I get an error message:

    "Field to correctly parse lines: 1298"

    So I have chacked and it looks like this (I'm showing lines 1296 -1299)

    k__Bacteria p__Firmicutes c__Clostridia o__Clostridiales f__ g__ s__ 463289 7.0 3.0 35.0 233.0

    k__Bacteria p__Firmicutes c__Clostridia o__Clostridiales f__ g__ s__ 228232 2.0 14.0 3.0 0.0

    k__Bacteria p__Bacteroidetes c__Bacteroidia o__Bacteroidales f__S24-7 g__ s__ New.ReferenceOTU78 0.0 3.0 0.0 1.0

    k__Bacteria p__Firmicutes c__Clostridia o__Clostridiales f__ g__ s__ New.ReferenceOTU79 1.0 2.0 4.0 0.0


    I see that starting from the line 1298 in "Observation Ids" collumn I am getting New.ReferenceOTUxxx and I have this parameter to the end of my file. Before line 1298 I have Observation Ids in numbers.

    What can I do or change? Maybe I should change something during my Qiime analysis?
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