pantable 0.14.2

Description:

pantable 0.14.2

Date:
November 30, 2021


Contents

Introduction

A word on support


Installation

Pip
Conda
Note on versions

Supported pandoc versions




Pantable as pandoc filters

pantable
Example
Usage
Syntax
pantable2csv
pantable2csvx


Pantable as a library
Development
Related Filters




docs




tests




package





conda-forge


cite





Introduction
Pantable is a Python library that maps the pandoc Table AST to an internal structure losslessly. This enables writing pandoc filters specifically manipulating tables in pandoc.
This also comes with 3 pandoc filters, pantable, pantable2csv, pantable2csvx.
pantable is the main filter, introducing a syntax to include CSV table in markdown source. It supports all table features supported by the pandoc Table AST.
pantable2csv complements pantable, is the inverse of pantable, which convert native pandoc tables into the CSV table format defined by pantable. This is lossy as of pandoc 2.11+, which is supported since pantable 0.13.
pantable2csvx (experimental, may drop in the future) is similar to pantable2csv, but introduces an extra column with the fancy-table syntax defined below such that any general pandoc Table AST can be losslessly encoded in CSV format.
Some example uses are:

You already have tables in CSV format.
You feel that directly editing markdown table is troublesome. You want a spreadsheet interface to edit, but want to convert it to native pandoc table for higher readability. And this process might go back and forth.
You want lower-level control on the table and column widths.
You want to use all table features supported by the pandoc’s internal AST table format, which is not possible in markdown for pandoc (as of writing.)


A word on support
Note that the above is exactly how I use pantable personally. So you can count on the round-trip losslessness. pantable and pantable2csv should have robust support since it has been used for years. But since pandoc 2.11 the table AST has been majorly revised. Pantable 0.13 added support for this new AST by completely rewriting pantable, at the same time addresses some of the shortcoming of the original design. Part of the new design is to enable pantable as a library (see Pantable as a library below) so that its functionality can be extended, similar to how to write a pandoc filter to intercept the AST and modify it, you can intercept the internal structure of PanTable and modify it.
However, since this library is completely rewritten as of v0.13,

pantable and pantable2csv as pandoc filters should be stable

there may be regression, please open an issue to report this


round-trip losslessness may break, please open an issue to report this
pantable2csvx as pandoc filter is experimental. API here might change in the future or may be dropped completed (e.g. replaces by something even more general)
Pantable as a library also is experimental, meaning that the API might be changed in the future.




Installation

Pip
To manage pantable using pip, open the command line and run

pip install pantable to install

pip install https://github.com/ickc/pantable/archive/master.zip to install the in-development version


pip install -U pantable to upgrade
pip uninstall pantable to remove

You need a matching pandoc version for pantable to work flawlessly. See Supported pandoc versions for details. Or, use the Conda method to install below to have the pandoc version automatically managed for you.


Conda
To manage pantable with a matching pandoc version, open the command line and run

conda install -c conda-forge pantable to install
conda update pantable to upgrade
conda remove pantable to remove

You may also replace conda by mamba, which is basically a drop-in replacement of the conda package manager. See mamba-org/mamba: The Fast Cross-Platform Package Manager for details.


Note on versions
Supported Python versions
pantable v0.12 drop Python 2 support. You need to pip install pantable<0.12 if you need to run it on Python 2.
To enforce using Python 3, depending on your system, you may need to specify python3 and pip3 explicitly.
Check the badge above or setup.py for supported Python versions, setup.py further indicates support of pypy in additional of CPython.

Supported pandoc versions
pandoc versioning semantics is MAJOR.MAJOR.MINOR.PATCH and panflute’s is MAJOR.MINOR.PATCH. Below we shows matching versions of pandoc that panflute supports, in descending order. Only major version is shown as long as the minor versions doesn’t matter.

Version Matching [1]

pantable
panflute version
supported pandoc versions
supported pandoc API versions



0.14.1
2.1.3
2.11.0.4–2.16.x
1.22–1.22.1

0.14
2.1
2.11.0.4—2.14.x
1.22

0.13
2.0
2.11.0.4—2.11.x
1.22





not supported
2.10
1.21

0.12
1.12
2.7-2.9
1.17.5–1.20



Note: pandoc 2.10 is short lived and 2.11 has minor API changes comparing to that, mainly for fixing its shortcomings. Please avoid using pandoc 2.10.
To use pantable with pandoc < 2.10, install pantable 0.12 explicitly by pip install pantable~=0.12.4.




Pantable as pandoc filters

pantable
This allows CSV tables, optionally containing markdown syntax (disabled by default), to be put in markdown as a fenced code blocks.


Example
Also see the README in GitHub Pages.
```table
---
caption: '*Awesome* **Markdown** Table'
alignment: RC
table-width: 2/3
markdown: True
---
First row,defaulted to be header row,can be disabled
1,cell can contain **markdown**,"It can be aribrary block element:

- following standard markdown syntax
- like this"
2,"Any markdown syntax, e.g.",E = mc^2^
```
becomes

Awesome Markdown Table

First row
defaulted to be header row
can be disabled



1
cell can contain markdown
It can be aribrary block element:

following standard markdown syntax
like this



2
Any markdown syntax, e.g.
E = mc2



(The equation might not work if you view this on PyPI.)


Usage
pandoc -F pantable -o README.html README.md


Syntax
Fenced code blocks is used, with a class table. See Example.
Optionally, YAML metadata block can be used within the fenced code block, following standard pandoc YAML metadata block syntax. 7 metadata keys are recognized:

caption
the caption of the table. Can be block-like. If omitted, no caption will be inserted. Interpreted as markdown only if markdown: true below.
Default: disabled.

short-caption
the short-caption of the table. Must be inline-like element. Interpreted as markdown only if markdown: true below.
Default: disabled.

alignment
alignment for columns: a string of characters among L,R,C,D, case-insensitive, corresponds to Left-aligned, Right-aligned, Center-aligned, Default-aligned respectively. e.g. LCRD for a table with 4 columns.
You can specify only the beginning that’s non-default. e.g. DLCR for a table with 8 columns is equivalent to DLCRDDDD.
Default: DDD...

alignment-cells
alignment per cell. One row per line. A string of characters among L,R,C,D, case-insensitive, corresponds to Left-aligned, Right-aligned, Center-aligned, Default-aligned respectively. e.g.
LCRD
DRCL
for a table with 4 columns, 2 rows.
you can specify only the top left block that is not default, and the rest of the cells with be default to default automatically. e.g.
DC
LR
for a table with 4 columns, 3 rows will be equivalent to
DCDD
LRDD
DDDD
Default: DDD...\n...

width
a list of relative width corresponding to the width of each columns. D means default width. e.g.
- width
- 0.1
- 0.2
- 0.3
- 0.4
- D
Again, you can specify only the left ones that are non-default and it will be padded with defaults.
Default: [D, D, D, ...]

table-width
the relative width of the table (e.g. relative to \linewidth). If specified as a number, and if any of the column width in width is default, then auto-width will be performed such that the sum of width equals this number.
Default: None

header
If it has a header row or not.
Default: True

markdown
If CSV table cell contains markdown syntax or not.
Default: False

fancy_table
if true, then the first column of the table will be interpreted as a special fancy-table syntax s.t. it encodes which rows are

table-header,
table-foot,
multiple table-bodies and
“body-head” within table-bodies.

see example below.

include
the path to an CSV file, can be relative/absolute. If non-empty, override the CSV in the CodeBlock.
Default: None

include-encoding
if specified, the file from include will be decoded according to this encoding, else assumed to be UTF-8. Hint: if you save the CSV file via Microsoft Excel, you may need to set this to utf-8-sig.

csv-kwargs
If specified, should be a dictionary passed to csv.reader as options. e.g.
---
csv-kwargs:
dialect: unix
key: value...
...

format
The file format from the data in code-block or include if specified.
Default: csv for data from code-block, and infer from extension in include.
Currently only csv is supported.

ms
(experimental, may drop in the future): a list of int that specifies the number of rows per row-block. e.g. [2, 6, 3, 4, 5, 1] means the table should have 21 rows, first 2 rows are table-head, last 1 row is table-foot, there are 2 table-bodies (indicated by 6, 3, 4, 5 in the middle) where the 1st body 6, 3 has 6 body-head and 3 “body-body”, and the 2nd body 4, 5 has 4 body-head and 5 “body-body”.
If this is specified, header will be ignored.
Default: None, which would be inferred from header.

ns_head
(experimental, may drop in the future): a list of int that specifies the number of head columns per table-body. e.g. [1, 2] means the 1st table-body has 1 column of head, the 2nd table-body has 2 column of head
Default: None




pantable2csv
This one is the inverse of pantable, a panflute filter to convert any native pandoc tables into the CSV table format used by pantable.
Effectively, pantable forms a “CSV Reader”, and pantable2csv forms a “CSV Writer”. It allows you to convert back and forth between these 2 formats.
For example, in the markdown source:
+--------+---------------------+--------------------------+
| First | defaulted to be | can be disabled |
| row | header row | |
+========+=====================+==========================+
| 1 | cell can contain | It can be aribrary block |
| | **markdown** | element: |
| | | |
| | | - following standard |
| | | markdown syntax |
| | | - like this |
+--------+---------------------+--------------------------+
| 2 | Any markdown | $$E = mc^2$$ |
| | syntax, e.g. | |
+--------+---------------------+--------------------------+

: *Awesome* **Markdown** Table
running pandoc -F pantable2csv -o output.md input.md, it becomes
``` {.table}
---
alignment: DDD
caption: '*Awesome* **Markdown** Table'
header: true
markdown: true
table-width: 0.8055555555555556
width: [0.125, 0.3055555555555556, 0.375]
---
First row,defaulted to be header row,can be disabled
1,cell can contain **markdown**,"It can be aribrary block element:

- following standard markdown syntax
- like this
"
2,"Any markdown syntax, e.g.",$$E = mc^2$$
```


pantable2csvx
(experimental, may drop in the future)
Similar to pantable2csv, but convert with fancy_table syntax s.t. any general Table in pandoc AST is in principle losslessly converted to a markdown-ish syntax in a CSV representation.
e.g.
pandoc -F pantable2csvx -o tests/files/native_reference/planets.md tests/files/native/planets.native
would turn the native Table from platnets.native [2] to
``` {.table}
---
caption: Data about the planets of our solar system.
alignment: CCDRRRRRRRR
ns-head:
- 3
markdown: true
fancy-table: true
...
===,"(1, 2)
",,Name,Mass (10\^24kg),Diameter (km),Density (kg/m\^3),Gravity (m/s\^2),Length of day (hours),Distance from Sun (10\^6km),Mean temperature (C),Number of moons,Notes
,"(4, 2)
Terrestrial planets",,Mercury,0.330,"4,879",5427,3.7,4222.6,57.9,167,0,Closest to the Sun
,,,Venus,4.87,"12,104",5243,8.9,2802.0,108.2,464,0,
,,,Earth,5.97,"12,756",5514,9.8,24.0,149.6,15,1,Our world
,,,Mars,0.642,"6,792",3933,3.7,24.7,227.9,-65,2,The red planet
,"(4, 1)
Jovian planets","(2, 1)
Gas giants",Jupiter,1898,"142,984",1326,23.1,9.9,778.6,-110,67,The largest planet
,,,Saturn,568,"120,536",687,9.0,10.7,1433.5,-140,62,
,,"(2, 1)
Ice giants",Uranus,86.8,"51,118",1271,8.7,17.2,2872.5,-195,27,
,,,Neptune,102,"49,528",1638,11.0,16.1,4495.1,-200,14,
___,"(1, 2)
Dwarf planets",,Pluto,0.0146,"2,370",2095,0.7,153.3,5906.4,-225,5,Declassified as a planet in 2006.
```



Pantable as a library
(experimental, API may change in the future)
Documentation here is sparse, partly because the upstream (pandoc) may change the table AST again. See Crazy ideas: table structure from upstream GitHub.
See the API docs in https://ickc.github.io/pantable/.
For example, looking at the source of pantable as a pandoc filter, in codeblock_to_table.py, you will see the main function doing the work is now
pan_table_str = (
PanCodeBlock
.from_yaml_filter(options=options, data=data, element=element, doc=doc)
.to_pantablestr()
)
if pan_table_str.table_width is not None:
pan_table_str.auto_width()
return (
pan_table_str
.to_pantable()
.to_panflute_ast()
)
You can see another example from table_to_codeblock.py which is what pantable2csv and pantable2csvx called.
Below is a diagram illustrating the API:



Overview


Solid arrows are lossless conversions. Dashed arrows are lossy.
You can see the pantable internal structure, PanTable is one-one correspondence to the pandoc Table AST. Similarly for PanCodeBlock.
It can then losslessly converts between PanTable and PanTableMarkdown, where everything in PanTableMarkdown is now markdown strings (whereas those in PanTable are panflute or panflute-like AST objects.)
Lastly, it defines a one-one correspondence to PanCodeBlock with fancy_table syntax mentioned earlier.
Below is the same diagram with the method names. You’d probably want to zoom into it to see it clearly.



Detailed w/ methods




Development
To run all the tests run tox. GitHub Actions is used for CI too so if you fork this you can check if your commits passes there.


Related Filters
(The table here is created in the beginning of pantable, which has since added more features. This is left here for historical reason and also as a credit to those before this.)
The followings are pandoc filters written in Haskell that provide similar functionality. This filter is born after testing with theirs.

baig/pandoc-csv2table: A Pandoc filter that renders CSV as Pandoc Markdown Tables.
mb21/pandoc-placetable: Pandoc filter to include CSV data (from file or URL)
sergiocorreia/panflute/csv-tables.py




pandoc-csv2table
pandoc-placetable
panflute example
pantable



caption
caption
caption
title
caption

aligns
aligns = LRCD
aligns = LRCD

aligns = LRCD

width

widths = “0.5 0.2 0.3”

width: [0.5, 0.2, 0.3]

table-width



table-width: 1.0

header
header = yes | no
header = yes | no
has_header: True | False
header: True | False | yes | NO

markdown

inlinemarkdown

markdown: True | False | yes | NO

source
source
file
source
include

others
type = simple | multiline | grid | pipe






delimiter





quotechar





id (wrapped by div)



Notes



width are auto-calculated when width is not specified





[1]
For pandoc API verion, check https://hackage.haskell.org/package/pandoc for pandoc-types, which is the same thing.


[2]
copied from pandoc from here, which was dual licensed as CC0 here