Hi everyone,
I just installed MaAsLin2 in R and (I thought) all its dependencies. When I try running the demo, I receive following warning/error:
[1] "Warning: Deleting existing log file: maaslin2_example_output/maaslin2.log"
2019-06-26 10:31:11 INFO::Writing function arguments to log file
2019-06-26 10:31:11 INFO::Verifying options selected are valid
2019-06-26 10:31:11 INFO::Determining format of input files
2019-06-26 10:31:11 INFO::Input format is data samples as rows and metadata samples as rows
2019-06-26 10:31:11 INFO::Formula for fixed effects: expr ~ Metadata1 + Metadata2 + Metadata3 + Metadata4 + Metadata5_TP + Metadata6 + Metadata7 + Metadata8 + Metadata9_TP + Metadata10
2019-06-26 10:31:11 INFO::Running selected normalization method: TSS
2019-06-26 10:31:11 INFO::Filter data based on min abundance and min prevalence
2019-06-26 10:31:11 INFO::Total samples in data: 200
2019-06-26 10:31:11 INFO::Min samples required with min abundance for a feature not to be filtered: 20.000000
2019-06-26 10:31:11 INFO::Total filtered features: 0
2019-06-26 10:31:11 INFO::Filtered feature names:
2019-06-26 10:31:11 INFO::Applying z-score to standardize continuous metadata
2019-06-26 10:31:11 INFO::Running selected transform method: LOG
2019-06-26 10:31:11 INFO::Running selected analysis method: LM
Error in fit.data(filtered_data, metadata, analysis_method, formula = formula, :
could not find function "fit.data"
I am not sure which package is missing, but I receive the same error with my data and metadata files.
Any help is appreciated,
Thanks!