mcx convert - convert between mcx storage types
mcx convert <matrix-file-in> <matrix-file-out>
mcx convert [--write-binary] --cone-to-stack <cat-file-in>
<cat-file-out>
mcx convert [--write-binary] --stack-to-cone <cat-file-in>
<cat-file-out>
mcxconvert is not in actual fact a program. This manual page documents the
behaviour and options of the mcx program when invoked in mode
convert.
The options
-h,
--apropos,
--version,
-set,
--nop,
-progress <num> are accessible in all
mcx modes. They are described in the
mcx manual page.
mcx convert [--cone-to-stack (
transform cone file to stack
file)
] [--stack-to-cone (
transform stack file to cone
file)
] [--write-binary (
output native binary
format)
] [--cat (
read and write cat format)
]
[-cat-max <num> (
limit the stack conversion to <num>
matrices)
]
In the two-argument invocation without additional arguments,
mcx convert
converts from the format found in the first file to the other format, i.e.
from native interchange to native binary format or the other way around. When
querying with the
-q option, mcx{convert} will output a one-line
synopsis describing the matrix in the argument. The
--cone-to-stack and
--stack-to-cone options convert between the two types of concatenated
output provided by
mclcm.
The
mcl libraries make extensive use of matrices. Matrices are used to
encode graphs, matrices and clusterings. They can be stored either in
interchange or in binary format. The latter is somewhat more efficient in
storage and much faster in both reading and writing, but the default is
interchange format.
The
mcl input routines recognize the type of storage they are dealing
with. If you want to convert a matrix to the other storage type, simply
specify the file name of the matrix you want to convert.
mcx convert
will recognize its type, and write the other type to the file specified as the
second argument.
--cone-to-stack (
transform cone file to stack file)
This option requires two trailing options, the names of respectively the source
cone file and the target stack file.
--stack-to-cone (
transform stack file to cone file)
This option requires two trailing options, the names of respectively the source
stack file and the target cone file.
--cat (
read and write cat format)
-cat-max <num> (
limit the stack conversion to <num>
matrices)
--write-binary (
output native binary format)
This option is only useful with either of the options
--cone-to-stack,
--stack-to-cone, or
--cat.
Stijn van Dongen.
mcxio(5), and
mclfamily(7) for an overview of all the
documentation and the utilities in the mcl family.