undatum (pronounced un-da-tum) is a command line data processing tool.
Its goal is to make CLI interaction with huge datasets so easy as possible.
It provides a simple undatum
command that allows to convert, split, calculate frequency, statistics and to validate
data in CSV, JSON lines, BSON files.
- Common data operations against CSV, JSON lines and BSON files
- Built-in data filtering
- Conversion between CSV, JSONl, BSON, XML, XLS, XLSX file types
- Low memory footprint
- Support for compressed datasets
- Advanced statistics calculations
- Date/datetime fields automatic recognition
- Data validation
- Documentation
- Test coverage
On macOS, undatum can be installed via Homebrew (recommended):
$ brew install undatum
A MacPorts port is also available:
$ port install undatum
Most Linux distributions provide a package that can be installed using the system package manager, for example:
# Debian, Ubuntu, etc.
$ apt install undatum
# Fedora
$ dnf install undatum
# CentOS, RHEL, ...
$ yum install undatum
# Arch Linux
$ pacman -S undatum
A universal installation method (that works on Windows, Mac OS X, Linux, …, and always provides the latest version) is to use pip:
# Make sure we have an up-to-date version of pip and setuptools:
$ pip install --upgrade pip setuptools
$ pip install --upgrade undatum
(If pip
installation fails for some reason, you can try
easy_install undatum
as a fallback.)
Python version 3.6 or greater is required.
Synopsis:
$ undatum [flags] [command] inputfile
See also undatum --help
.
Get headers from file as headers command, JSONl data:
$ undatum headers examples/ausgovdir.jsonl
Analyze file and generate statistics stats command:
$ undatum stats examples/ausgovdir.jsonl
Get frequency command of values for field GovSystem in the list of Russian federal government domains from govdomains repository
$ undatum frequency examples/feddomains.csv --fields GovSystem
Get all unique values using uniq command of the item.type field
$ undatum uniq --fields item.type examples/ausgovdir.jsonl
convert command from XML to JSON lines file on tag item:
$ undatum convert --tagname item examples/ausgovdir.xml examples/ausgovdir.jsonl
Validate data with validate command against validation rule ru.org.inn and field VendorINN in data file. Output is statistcs only :
$ undatum validate -r ru.org.inn --mode stats --fields VendorINN examples/roszdravvendors_final.jsonl > inn_stats.json
Validate data with validate command against validation rule ru.org.inn and field VendorINN in data file. Output all invalid records :
$ undatum validate -r ru.org.inn --mode invalid --fields VendorINN examples/roszdravvendors_final.jsonl > inn_invalid.json
Field value frequency calculator. Returns frequency table for certain field
Get frequencies of values for field GovSystem in the list of Russian federal government domains from govdomains repository
$ undatum frequency examples/feddomains.csv --fields GovSystem
Returns all unique files of certain field(s). Accepts parameter fields with comma separated fields to gets it unique values. Provide single field name to get unique values of this field or provide list of fields to get combined unique values.
Returns all unique values of field regions in selected JSONl file
$ undatum uniq --fields region examples/reestrgp_final.jsonl
Returns all unique combinations of fields status and regions in selected JSONl file
$ undatum uniq --fields status,region examples/reestrgp_final.jsonl
Converts data from one format to another. Supports conversions:
- XML to JSON lines
- CSV to JSON lines
- XLS to JSON lines
- XLSX to JSON lines
- XLS to CSV
- CSV to BSON
- XLS to BSON
Conversion between XML and JSON lines require flag tagname with name of tag which should be converted into single JSON record.
Converts XML ausgovdir.xml with tag named item to ausgovdir.jsonl
$ undatum convert --tagname item examples/ausgovdir.xml examples/ausgovdir.jsonl
Validate command used to check every value of of field against validation rules like rule to validate email or url.
Current supported rules:
- common.email - checks if value is email
- common.url - checks if value is url
- ru.org.inn - checks if value is russian organization INN identifier
- ru.org.ogrn - checks if value if russian organization OGRN identifier
Validate data with validate command against validation rule ru.org.inn and field VendorINN in data file. Output all invalid records :
$ undatum validate -r ru.org.inn --mode invalid --fields VendorINN examples/roszdravvendors_final.jsonl > inn_invalid.json
Returns fieldnames of the file. Supports CSV, JSON, BSON file types. For CSV file it takes first line of the file and for JSON lines and BSON files it processes number of records provided as limit parameter with default value 10000.
Returns headers of JSON lines file with top 10 000 records (default value)
$ undatum headers examples/ausgovdir.jsonl
Returns headers of JSON lines file using top 50 000 records
$ undatum headers --limit 50000 examples/ausgovdir.jsonl
Collects statistics about data in dataset. Right now supports only JSON lines files
Returns table with following data:
- key - name of the key
- ftype - data type of the values with this key
- is_dictkey - if True, than this key is identified as dictionary value
- is_uniq - if True, identified as unique field
- n_uniq - number of unique values
- share_uniq - share of unique values among all values
- minlen - minimal length of the field
- maxlen - maximum length of the field
- avglen - average length of the field
Returns stats for JSON lines file
$ undatum stats examples/ausgovdir.jsonl
Analysis of JSON lines file and verifies each field that it's date field, detects date format:
$ undatum stats --checkdates examples/ausgovdir.jsonl
Splits dataset into number of datasets based on number of records or field value. Chunksize parameter -c used to set size of chunk if dataset should be splitted by chunk size rule. If dataset should be splitted by field value than --fields parameter used.
Split dataset as 10000 records chunks, procuces files like filename_1.jsonl, filename_2.jsonl where filename is name of original file except extension.
$ undatum split -c 10000 examples/ausgovdir.jsonl
Split dataset as number of files based of field item.type", generates files [filename]_[value1].jsonl, [filename]_[value2].jsonl and e.t.c. There are *[filename] - ausgovdir and [value1] - certain unique value from item.type field
$ undatum split --fields item.type examples/ausgovdir.jsonl
Select or re-order columns from file. Supports CSV, JSON lines, BSON
Returns columns item.title and item.type from ausgovdir.jsonl
$ undatum select --fields item.title,item.type examples/ausgovdir.jsonl
Returns columns item.title and item.type from ausgovdir.jsonl and stores result as selected.jsonl
$ undatum select --fields item.title,item.type -o selected.jsonl examples/ausgovdir.jsonl
Flatten data records. Write them as one value per row
Returns all columns as flattened key,value
$ undatum flatten examples/ausgovdir.jsonl
You could filter values of any file record by using filter attr for any command where it's suported.
Returns columns item.title and item.type filtered with item.type value as role. Note: keys should be surrounded by "`" and text values by "'".
$ undatum select --fields item.title,item.type --filter "`item.type` == 'role'" examples/ausgovdir.jsonl
Sometimes, to keep keep memory usage as low as possible to process huge data files. These files are inside compressed containers like .zip, .gz, .bz2 or .tar.gz files. undatum could process compressed files with little memory footprint, but it could slow down file processing.
Returns headers from subs_dump_1.jsonl file inside subs_dump_1.zip file. Require parameter -z to be set and --format-in force input file type.
$ undatum headers --format-in jsonl -z subs_dump_1.zip
JSON, JSON lines and CSV files do not support date and datetime data types. If you manually prepare your data, than you could define datetime in JSON schema for example.B But if data is external, you need to identify these fields.
undatum supports date identification via qddate python library with automatic date detection abilities.
$ undatum stats --checkdates examples/ausgovdir.jsonl
JSON lines is a replacement to CSV and JSON files, with JSON flexibility and ability to process data line by line, without loading everithing into memory.