NAME

       add_metadata - Script to add sample and/or observation metadata to BIOM-formatted files.

SYNOPSIS

       Detailed      usage      examples      can      be      found      here:      http://biom-
       format.org/documentation/adding_metadata.html

DESCRIPTION

       Script to add sample and/or observation metadata to BIOM-formatted files.

OPTIONS

       --version
              show program's version number and exit

       -h, --help
              show this help message and exit

              Required Options:

       -i INPUT_FP, --input_fp=INPUT_FP
              the input BIOM filepath

       -o OUTPUT_FP, --output_fp=OUTPUT_FP
              the output BIOM filepath

              Optional Options:

       -m SAMPLE_MAPPING_FP, --sample_mapping_fp=SAMPLE_MAPPING_FP
              The sample mapping filepath (will add sample metadata to biom  file,  if  provided)
              [default: none]

       --observation_mapping_fp=OBSERVATION_MAPPING_FP
              The  observation  mapping  filepath (will add observation metadata to biom file, if
              provided) [default: none]

       --sc_separated=SC_SEPARATED
              comma-separated list of the metadata fields to split on semi-colons. this is useful
              for hierarchical data such as taxonomy or functional category [default: none]

       --int_fields=INT_FIELDS
              comma-separated list of the metadata fields to cast to integers. this is useful for
              integer data such as "DaysSinceStart" [default: none]

       --float_fields=FLOAT_FIELDS
              comma-separated list of the metadata fields to cast to floating point numbers. this
              is useful for real number data such as "pH" [default: none]

       --observation_header=OBSERVATION_HEADER
              comma-separated  list  of the observation metadata field names. this is useful if a
              header line is not provided with the metadata, if you want to rename the fields, or
              if  you  want  to  include only the first n fields where n is the number of entries
              provided here [default: use header from observation_mapping_fp]

       --sample_header=SAMPLE_HEADER
              comma-separated list of the sample metadata field names. this is useful if a header
              line is not provided with the metadata, if you want to rename the fields, or if you
              want to include only the first n fields where n is the number of  entries  provided
              here [default: use header from sample_mapping_fp]