Usage: 1dcat [options] a.1D b.1D ...
where each file a.1D, b.1D, etc. is a 1D file.
In the simplest form, a 1D file is an ASCII file of numbers
arranged in rows and columns.
1dcat takes as input one or more 1D files, and writes out a 1D file
containing the side-by-side concatenation of all or a subset of the
columns from the input files.
* Output goes to stdout (the screen); redirect (e.g., '>') to save elsewhere.
* All files MUST have the same number of rows!
* Any header lines (i.e., lines that start with '#') will be lost.
* For generic 1D file usage help and information, see '1dplot -help'
-----------
TSV files: [Sep 2018]
-----------
* 1dcat can now also read .tsv files, which are columns of values separated
by tab characters (tsv = tab separated values). The first row of a .tsv
file is a set of column labels. After the header row, each column is either
all numbers, or is a column of strings. For example
Col 1 Col 2 Col 3
3.2 7.2 Elvis
8.2 -1.2 Sinatra
6.66 33.3 20892
In this example, the column labels contain spaces, which are NOT separators;
the only column separator used in a .tsv file is the tab character.
The first and second columns are converted to number columns, since every
value (after the label/header row) is a numeric string. The third column
is stored as strings, since some of the entries are not valid numbers.
* 1dcat can deal with a mix of .1D and .tsv files. The .tsv file header
rows are NOT output by default, since .1D files don't have such headers.
* The usual output from 1dcat is NOT a .tsv file - blanks are used for
separators. You can use the '-tsvout' option to get TSV formatted output.
* If you mix .1D and .tsv files, the number of data rows in each file
must be the same. Since the header row in a .tsv file is NOT used here,
the total number of lines in a .tsv file must be 1 more than the number
of lines in a .1D file for the two files to match in this program.
* The purpose of supporting .tsv files is for eventual compatibility with
the BIDS format http://bids.neuroimaging.io - which uses .tsv files
extensively to provide auxiliary information for (F)MRI datasets.
* Column selectors (like '[0,3]') can be used on .tsv files, but row selectors
(like '{0,3..5}') cannot be used on .tsv files - at this time :(
* You can also select a column in a .tsv file by using the label at the top of
of the column. A BIDS-related example:
1dcat sub-666_task-XXX_events.tsv'[onset,duration,trial_type,reaction_time]'
A similar example, which outputs a list of the trial types in an imaging run:
1dcat sub-666_task-XXX_events.tsv'[trial_type]' | sort | uniq
* Since .1D files don't have headers, the label method of column selection
doesn't work with such inputs; you must use integer column selectors
on .1D files.
* NOTE WELL: The string 'N/A' or 'n/a' in a column that is otherwise numeric
will be considered to be a number, and will be replaced on input
with the mean of the "true" numbers in the column -- there is
no concept of missing data in an AFNI .1D file.
++ If you don't like this, well ... too bad for you.
* NOTE WELL: 1dcat now also allows comma separated value (.csv) files. These
are treated the same as .tsv files, with a header line, et cetera.
--------
OPTIONS:
--------
-tsvout = Output in a TSV (.tsv) format, where the values in each row
are separated by tabs, not blanks. Also, a header line will
be provided, as TSV files require.
-csvout = Output in a CSV (.csv) format, where the values in each row
are separated by commas, not blanks. Also, a header line will
be provided, as CSV files require.
-nonconst = Columns that are identically constant should be omitted
from the output.
-nonfixed = Keep only columns that are marked as 'free' in the
3dAllineate header from '-1Dparam_save'.
If there is no such header, all columns are kept.
* NOTE: -nconst and -nonfixed don't have any effect on
.tsv/.csv files, and the use of these options
has NOT been tested at all when the inputs
are mixture of .tsv/.csv and .1D files.
-form FORM = Format of the numbers to be output.
You can also substitute -form FORM with shortcuts such
as -i, -f, or -c.
For help on -form's usage, and its shortcut versions
see ccalc's help for the option of the same name.
-stack = Stack the columns of the resultant matrix in the output.
You can't use '-stack' with .tsv/.csv files :(
-sel SEL = Apply the same column/row selection string to all filenames
on the command line.
For example:
1dcat -sel '[0,2]' f1.1D f2.1D
is the same as: 1dcat f1.1D'[1,2]' f2.1D'[1,2]'
The advantage of the option is that it allows wildcard use
in file specification so that you can run something like:
1dcat -sel '[0,2]' f?.1D
-OKempty: Exit quietly when encountering an empty file on disk.
Note that if the file is poorly formatted, it might be
considered empty.
EXAMPLE:
--------
Input file 1:
1
2
3
4
Input file 2:
5
6
7
8
1dcat data1.1D data2.1D > catout.1D
Output file:
1 5
2 6
3 7
4 8
++ Compile date = Oct 17 2024 {AFNI_24.3.03:linux_ubuntu_24_64}
