restructuration of the documentation
This commit is contained in:
1
doc/.gitignore
vendored
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doc/.gitignore
vendored
@ -1 +1,2 @@
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/build/
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/doxygen/
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@ -768,7 +768,7 @@ WARN_LOGFILE =
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||||
# spaces.
|
||||
# Note: If this tag is empty the current directory is searched.
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||||
|
||||
INPUT = /Users/celinemercier/Documents/workspace/OBITools3/src
|
||||
INPUT = ../src
|
||||
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||||
# This tag can be used to specify the character encoding of the source files
|
||||
# that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses
|
||||
@ -1085,7 +1085,7 @@ IGNORE_PREFIX =
|
||||
# If the GENERATE_HTML tag is set to YES, doxygen will generate HTML output
|
||||
# The default value is: YES.
|
||||
|
||||
GENERATE_HTML = NO
|
||||
GENERATE_HTML = YES
|
||||
|
||||
# The HTML_OUTPUT tag is used to specify where the HTML docs will be put. If a
|
||||
# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of
|
||||
|
||||
154
doc/source/DMS.rst
Normal file
154
doc/source/DMS.rst
Normal file
@ -0,0 +1,154 @@
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||||
*********************************************
|
||||
The OBItools3 Data Management System (OBIDMS)
|
||||
*********************************************
|
||||
|
||||
A complete DNA Metabarcoding experiment rely on several kinds of data.
|
||||
|
||||
- The sequence data resulting of the PCR products sequencing,
|
||||
- The description of the samples including all their metadata,
|
||||
- One or several refence database used for the taxonomical annotation
|
||||
- One or several taxonomies.
|
||||
|
||||
Up to now each of these categories of data were stored in separate
|
||||
files an nothing obliged to keep them together.
|
||||
|
||||
|
||||
The `Data Management System` (DMS) of OBITools3 can be considered
|
||||
as a basic database system.
|
||||
|
||||
|
||||
OBIDMS UML
|
||||
==========
|
||||
|
||||
.. image:: ./images/OBIDMS_UML.png
|
||||
|
||||
:download:`html version of the OBIDMS UML file <UML/ObiDMS_UML.class.violet.html>`
|
||||
|
||||
|
||||
An OBIDMS directory consists of :
|
||||
* OBIDMS column files
|
||||
* OBIDMS release files
|
||||
* OBIDMS dictionary files
|
||||
* one OBIDMS history file
|
||||
|
||||
|
||||
OBIDMS column files
|
||||
===================
|
||||
|
||||
Each OBIDMS column file contains :
|
||||
* a header of a size equal to a multiple of PAGESIZE (PAGESIZE being equal to 4096 bytes
|
||||
on most systems) containing metadata
|
||||
* one column of data with the same OBIType
|
||||
|
||||
|
||||
Header
|
||||
------
|
||||
|
||||
The header of an OBIDMS column contains :
|
||||
|
||||
* Endian byte order
|
||||
* Header size (PAGESIZE multiple)
|
||||
*
|
||||
* File status : Open/Closed
|
||||
* Owner : PID of the process that created the file and is the only one allowed to modify it if it is open
|
||||
* Number of lines (total or without the header?)
|
||||
* OBIType
|
||||
* Date of creation
|
||||
* Version of the file
|
||||
* Eventual comments
|
||||
|
||||
|
||||
Data
|
||||
----
|
||||
|
||||
A column of data with the same OBIType.
|
||||
|
||||
|
||||
Mandatory columns
|
||||
-----------------
|
||||
|
||||
Some columns must exist in an OBIDMS directory :
|
||||
* sequence identifiers column (type *OBIStr_t*)
|
||||
|
||||
|
||||
File name
|
||||
---------
|
||||
|
||||
Each file is named with the attribute associated to the data it contains, and the number of
|
||||
its version, separated by an ``@``, and with the extension ``.odc``.
|
||||
|
||||
Example : ``count@3.odc``
|
||||
|
||||
|
||||
Modifications
|
||||
-------------
|
||||
|
||||
An OBIDMS column file can only be modified by the process that created it, if its status is set to Open. Those informations are
|
||||
contained in the `header <#header>`_.
|
||||
|
||||
When a process wants to modify an OBIDMS column file that is closed, it must first clone it. Cloning creates a new version of the
|
||||
file that belongs to the process, i.e., only that process can modify that file, as long as its status is set to Open. Once the process
|
||||
has finished writing the new version of the column file, it sets the column file's status to Closed, and the file can never be modified
|
||||
again.
|
||||
|
||||
That means that one column is stored in one file (if there is only one version)
|
||||
or more (if there are several versions), and that there is one file per version.
|
||||
|
||||
|
||||
Versioning
|
||||
----------
|
||||
|
||||
The first version of a column file is numbered 1, and each new version increments that
|
||||
number by 1.
|
||||
|
||||
The number of the latest version of an OBIDMS column is stored in an `OBIDMS release file <formats.html#obidms-release-files>`_.
|
||||
|
||||
|
||||
OBIDMS release files
|
||||
====================
|
||||
|
||||
Each OBIDMS column is associated with an OBIDMS release file that contains the number of the latest
|
||||
version of the column.
|
||||
|
||||
File name
|
||||
---------
|
||||
|
||||
OBIDMS release files are named with the attribute associated to the data contained in the column, and
|
||||
have the extension ``.odr``.
|
||||
|
||||
Example : ``count.odr``
|
||||
|
||||
|
||||
OBIDMS views
|
||||
============
|
||||
|
||||
An OBIDMS view consists of a list of OBIDMS columns and lines. A view includes one version
|
||||
of each mandatory column. Only one version of each column is included. All the columns of
|
||||
one view contain the same number of lines in the same order.
|
||||
|
||||
|
||||
OBIDMS history file
|
||||
===================
|
||||
|
||||
An OBIDMS history file consists of an ordered list of views and commands, those commands leading
|
||||
from one view to the next one.
|
||||
|
||||
This history can be represented in the form of a --- showing all the
|
||||
operations ever done in the OBIDMS directory and the views in between them :
|
||||
|
||||
.. image:: ./images/history.png
|
||||
:width: 150 px
|
||||
:align: center
|
||||
|
||||
|
||||
|
||||
OBIIntColumn header file
|
||||
========================
|
||||
|
||||
.. doxygenfile:: obiintcolumn.h
|
||||
|
||||
|
||||
OBIColumn header file
|
||||
=====================
|
||||
|
||||
.. doxygenfile:: obicolumn.h
|
||||
File diff suppressed because it is too large
Load Diff
832
doc/source/UML/OBITypes_UML.class.violet.html
Normal file
832
doc/source/UML/OBITypes_UML.class.violet.html
Normal file
@ -0,0 +1,832 @@
|
||||
<HTML>
|
||||
<HEAD>
|
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<META name="description"
|
||||
content="Violet UML Editor cross format document" />
|
||||
<META name="keywords" content="Violet, UML" />
|
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<META charset="UTF-8" />
|
||||
<SCRIPT type="text/javascript">
|
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function switchVisibility() {
|
||||
var obj = document.getElementById("content");
|
||||
obj.style.display = (obj.style.display == "block") ? "none" : "block";
|
||||
}
|
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</SCRIPT>
|
||||
</HEAD>
|
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<BODY>
|
||||
This file was generated with Violet UML Editor 2.1.0.
|
||||
( <A href=# onclick="switchVisibility()">View Source</A> / <A href="http://sourceforge.net/projects/violet/files/violetumleditor/" target="_blank">Download Violet</A> )
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<textColor reference="8"/>
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<text>OBIContainer_t</text>
|
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</name>
|
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<attributes id="17" justification="0" size="4" underlined="false">
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<text></text>
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|
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|
||||
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|
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|
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<text></text>
|
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|
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<textColor reference="8"/>
|
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<name id="30" justification="1" size="3" underlined="false">
|
||||
<text>OBIList_t</text>
|
||||
</name>
|
||||
<attributes id="31" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
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|
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<methods id="32" justification="0" size="4" underlined="false">
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<text></text>
|
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||||
<revision>1</revision>
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<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="37" justification="1" size="3" underlined="false">
|
||||
<text>OBISet_t</text>
|
||||
</name>
|
||||
<attributes id="38" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
||||
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<text></text>
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||||
<revision>1</revision>
|
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<backgroundColor reference="7"/>
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||||
<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="44" justification="1" size="3" underlined="false">
|
||||
<text>OBIDictionnary_t</text>
|
||||
</name>
|
||||
<attributes id="45" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
||||
<methods id="46" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</methods>
|
||||
</ClassNode>
|
||||
<ClassNode id="47">
|
||||
<children id="48"/>
|
||||
<location class="Point2D.Double" id="49" x="170.0" y="220.0"/>
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<id id="50" value="cb77086b-7535-49dc-ab33-b58d16eec496"/>
|
||||
<revision>1</revision>
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||||
<backgroundColor reference="7"/>
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<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="51" justification="1" size="3" underlined="false">
|
||||
<text>OBIAtomic_t</text>
|
||||
</name>
|
||||
<attributes id="52" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
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<methods id="53" justification="0" size="4" underlined="false">
|
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<text></text>
|
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|
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|
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|
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<textColor reference="8"/>
|
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|
||||
<text>OBIComposite_t
|
||||
</text>
|
||||
</name>
|
||||
<attributes id="59" justification="0" size="4" underlined="false">
|
||||
<text></text>
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||||
<revision>1</revision>
|
||||
<backgroundColor reference="7"/>
|
||||
<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="65" justification="1" size="3" underlined="false">
|
||||
<text>OBIString_t</text>
|
||||
</name>
|
||||
<attributes id="66" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
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<methods id="67" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
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</methods>
|
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</ClassNode>
|
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<ClassNode id="68">
|
||||
<children id="69"/>
|
||||
<location class="Point2D.Double" id="70" x="450.0" y="400.0"/>
|
||||
<id id="71" value="752b5f9b-0ece-4902-8de5-e2c465d281dd"/>
|
||||
<revision>1</revision>
|
||||
<backgroundColor reference="7"/>
|
||||
<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="72" justification="1" size="3" underlined="false">
|
||||
<text>OBITaxid_t
|
||||
</text>
|
||||
</name>
|
||||
<attributes id="73" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
||||
<methods id="74" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
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|
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|
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|
||||
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|
||||
<location class="Point2D.Double" id="77" x="220.0" y="400.0"/>
|
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|
||||
<revision>1</revision>
|
||||
<backgroundColor reference="7"/>
|
||||
<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="79" justification="1" size="3" underlined="false">
|
||||
<text>OBIInteger_t
|
||||
</text>
|
||||
</name>
|
||||
<attributes id="80" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
||||
</attributes>
|
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<methods id="81" justification="0" size="4" underlined="false">
|
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<text></text>
|
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</ClassNode>
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|
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|
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<id id="85" value="01da8ca2-da98-4fde-9ffe-9753a3f202bf"/>
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||||
<revision>1</revision>
|
||||
<backgroundColor reference="7"/>
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||||
<borderColor reference="8"/>
|
||||
<textColor reference="8"/>
|
||||
<name id="86" justification="1" size="3" underlined="false">
|
||||
<text>OBIFloat_t</text>
|
||||
</name>
|
||||
<attributes id="87" justification="0" size="4" underlined="false">
|
||||
<text></text>
|
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|
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|
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|
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|
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|
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|
||||
<name id="93" justification="1" size="3" underlined="false">
|
||||
<text>OBIBool_t
|
||||
</text>
|
||||
</name>
|
||||
<attributes id="94" justification="0" size="4" underlined="false">
|
||||
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|
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|
||||
<revision>1</revision>
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kiRJLJ+KxfIBAMunfwKSJEksH6hYLB8AgsHyAQAAAAAgDPh/BFQraMwlB3wAAAAASUVORK5C" />
|
||||
</BODY>
|
||||
</HTML>
|
||||
1836
doc/source/UML/ObiDMS_UML.class.violet.html
Normal file
1836
doc/source/UML/ObiDMS_UML.class.violet.html
Normal file
File diff suppressed because it is too large
Load Diff
29
doc/source/containers.rst
Normal file
29
doc/source/containers.rst
Normal file
@ -0,0 +1,29 @@
|
||||
===============
|
||||
Container types
|
||||
===============
|
||||
|
||||
Containers allow to manage collection of values of homogeneous type.
|
||||
Three container types exist.
|
||||
|
||||
A container is a non-mutable structure once it has been locked.
|
||||
Consequently just insert procedure are needed
|
||||
|
||||
Lists
|
||||
-----
|
||||
|
||||
Correspond to an ordered list of values belonging an elementary type.
|
||||
|
||||
At its creation
|
||||
|
||||
|
||||
Sets
|
||||
----
|
||||
|
||||
Correspond to an unordered set of values belonging an elementary type.
|
||||
|
||||
|
||||
Dictionaries
|
||||
------------
|
||||
|
||||
Dictionaries allow to associate a `key` to a `value`. Values can be retrieved through its associated key.
|
||||
Values must belong an elementary type and keys must be *OBIStr_t*.
|
||||
16
doc/source/data.rst
Normal file
16
doc/source/data.rst
Normal file
@ -0,0 +1,16 @@
|
||||
#################
|
||||
Data in OBITools3
|
||||
#################
|
||||
|
||||
The OBITools3 inaugure a new way to manage DNA metabarcoding data.
|
||||
They rely on a `Data management System` (DMS) that can be considered as
|
||||
a simplified database system.
|
||||
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
|
||||
The data management system <DMS>
|
||||
The data types <types>
|
||||
|
||||
|
||||
40
doc/source/elementary.rst
Normal file
40
doc/source/elementary.rst
Normal file
@ -0,0 +1,40 @@
|
||||
================
|
||||
Elementary types
|
||||
================
|
||||
|
||||
They correspond to simple values.
|
||||
|
||||
Atomic types
|
||||
------------
|
||||
|
||||
========= ========= ============ ==============================
|
||||
Type C type OBIType Definition
|
||||
========= ========= ============ ==============================
|
||||
integer int32_t OBIInt_t a signed integer value
|
||||
float double OBIFloat_t a floating value
|
||||
boolean ? OBIBool_t a boolean true/false value
|
||||
char char OBIChar_t a character
|
||||
index size_t OBIIdx_t an index in a data structure
|
||||
========= ========= ============ ==============================
|
||||
|
||||
|
||||
The composite types
|
||||
-------------------
|
||||
|
||||
Character string type
|
||||
.....................
|
||||
|
||||
================ ====== ======== ==================
|
||||
Type C type OBIType Definition
|
||||
================ ====== ======== ==================
|
||||
Character string ? OBIStr_t a character string
|
||||
================ ====== ======== ==================
|
||||
|
||||
The taxid type
|
||||
..............
|
||||
|
||||
==================== ====== ========== ======================
|
||||
Type C type OBIType Definition
|
||||
==================== ====== ========== ======================
|
||||
Taxonomic identifier size_t OBITaxid_t a taxonomic identifier
|
||||
==================== ====== ========== ======================
|
||||
@ -1,102 +0,0 @@
|
||||
#######
|
||||
Formats
|
||||
#######
|
||||
|
||||
|
||||
*********************************************
|
||||
The OBItools3 Data Management System (OBIDMS)
|
||||
*********************************************
|
||||
|
||||
An OBIDMS directory consists of :
|
||||
* OBIDMS column files
|
||||
* OBIDMS view descriptions
|
||||
* an OBIDMS history file
|
||||
|
||||
|
||||
OBIDMS column files
|
||||
===================
|
||||
|
||||
Each OBIDMS column file contains :
|
||||
* a header of a size equal to a multiple of PAGESIZE (PAGESIZE being equal to 4096 bytes
|
||||
on most systems) containing metadata
|
||||
* one column of data of the same type
|
||||
|
||||
OBIDMS column files are read-only.
|
||||
|
||||
|
||||
File name
|
||||
---------
|
||||
|
||||
Each file is named with the attribute associated to the data it contains, and the number of
|
||||
its version, separated by an underscore.
|
||||
|
||||
Example : ``count_0003``
|
||||
|
||||
.. todo::
|
||||
Filename extension?
|
||||
|
||||
|
||||
Header
|
||||
------
|
||||
|
||||
The header of an OBIDMS column contains :
|
||||
|
||||
* Endian byte order
|
||||
* PAGESIZE value / Size of the header
|
||||
|
||||
* Number of lines (total or without the header?)
|
||||
* Data type (int, str...)
|
||||
* Date of creation
|
||||
* Version of the file
|
||||
* Eventual comments
|
||||
|
||||
|
||||
Data
|
||||
----
|
||||
|
||||
A column of data of the same type.
|
||||
|
||||
|
||||
Versioning
|
||||
----------
|
||||
|
||||
Since OBIDMS column files are read-only, any modification leads to the creation of a new version
|
||||
of the column file.
|
||||
|
||||
The first version of a column file is numbered 0001, and each new version increments that
|
||||
number by 1.
|
||||
|
||||
|
||||
Mandatory columns
|
||||
-----------------
|
||||
|
||||
Some columns must exist in an OBIDMS directory :
|
||||
* sequence identifiers column
|
||||
|
||||
|
||||
OBIDMS history file
|
||||
===================
|
||||
|
||||
An OBIDMS history file consists of data that can be represented in the form of a directed acyclic
|
||||
graph presenting the history of all the operations ever done in the OBIDMS directory.
|
||||
|
||||
|
||||
OBIDMS views
|
||||
============
|
||||
|
||||
An OBIDMS view corresponds to a list of OBIDMS columns and lines. A view includes one version
|
||||
of each mandatory column. Only one version of each column is included. All the columns of
|
||||
one view contain the same number of lines in the same order.
|
||||
|
||||
|
||||
OBIDMS ULM
|
||||
==========
|
||||
|
||||
.. image:: ./images/OBIDMS_ULM.png
|
||||
:download:`html version of the OBIDMS ULM file </ObiDMS_ULM.class.violet.html>`
|
||||
|
||||
|
||||
OBIIntColumn header file
|
||||
========================
|
||||
|
||||
.. doxygenfile:: obiintcolumn.h
|
||||
@ -100,12 +100,12 @@ Naming conventions
|
||||
******************
|
||||
|
||||
.. todo::
|
||||
Look for usual naming conventions
|
||||
Look for common naming conventions
|
||||
|
||||
|
||||
*****************
|
||||
Programming rules
|
||||
*****************
|
||||
|
||||
* The *int* type should never be used
|
||||
*
|
||||
|
||||
|
||||
Binary file not shown.
|
Before Width: | Height: | Size: 58 KiB |
BIN
doc/source/images/OBIDMS_UML.png
Normal file
BIN
doc/source/images/OBIDMS_UML.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 63 KiB |
BIN
doc/source/images/OBITypes_UML.png
Normal file
BIN
doc/source/images/OBITypes_UML.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 20 KiB |
BIN
doc/source/images/history.png
Normal file
BIN
doc/source/images/history.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 17 KiB |
@ -8,9 +8,10 @@ OBITools3 documentation
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
|
||||
|
||||
Programming guidelines <guidelines>
|
||||
Formats <formats>
|
||||
Data structures <data>
|
||||
Pistes de reflexion <pistes>
|
||||
|
||||
|
||||
Indices and tables
|
||||
@ -19,4 +20,3 @@ Indices and tables
|
||||
* :ref:`genindex`
|
||||
* :ref:`modindex`
|
||||
* :ref:`search`
|
||||
|
||||
|
||||
20
doc/source/pistes.rst
Normal file
20
doc/source/pistes.rst
Normal file
@ -0,0 +1,20 @@
|
||||
###################
|
||||
Pistes de reflexion
|
||||
###################
|
||||
|
||||
|
||||
******************************
|
||||
Ce que l'on veut pouvoir faire
|
||||
******************************
|
||||
|
||||
* Gerer les valeurs manquantes
|
||||
* Modifier une colonne en cours d'ecriture (mmap)
|
||||
* Ajouter des valeurs a la fin d'une colonne en cours d'ecriture (mmap)
|
||||
|
||||
|
||||
******
|
||||
Divers
|
||||
******
|
||||
|
||||
* Si l'ordre d'une colonne est change, elle est reecrite (pas d'index).
|
||||
* Truc pour verrouiller l'acces en lecture a un programme a la fois...
|
||||
25
doc/source/types.rst
Normal file
25
doc/source/types.rst
Normal file
@ -0,0 +1,25 @@
|
||||
********
|
||||
OBITypes
|
||||
********
|
||||
|
||||
|
||||
.. image:: ./images/OBITypes_UML.png
|
||||
:download:`html version of the OBITypes UML file <UML/OBITypes_UML.class.violet.html>`
|
||||
|
||||
.. note::
|
||||
All OBITypes have an associated NA (Not Available) value.
|
||||
We have currently two ideas for implementing NA values:
|
||||
|
||||
- By specifying an explicit NA value for each type
|
||||
- By adding to each column of an OBIDMS a bit vector
|
||||
indicating if the value is defined or not.
|
||||
|
||||
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
|
||||
The elementary types <elementary>
|
||||
The containers <containers>
|
||||
|
||||
|
||||
50
src/obicolumn.h
Normal file
50
src/obicolumn.h
Normal file
@ -0,0 +1,50 @@
|
||||
/****************************************************************************
|
||||
* OBIColumn header file *
|
||||
****************************************************************************/
|
||||
|
||||
/**
|
||||
* @file obicolumn.h
|
||||
* @author Celine Mercier
|
||||
* @date 12 May 2015
|
||||
* @brief Header file for the shared elements of all the OBIColumn structures.
|
||||
*/
|
||||
|
||||
#ifndef OBICOLUMN_H_
|
||||
#define OBICOLUMN_H_
|
||||
|
||||
#include <stdio.h>
|
||||
|
||||
|
||||
/**
|
||||
* @brief enum OBIDataType for the data type of the OBIColumns.
|
||||
*/
|
||||
|
||||
typedef enum OBIDataType {
|
||||
OBI_VOID = 0, /**< data type not specified */
|
||||
OBI_INT32, /**< type int32_t */
|
||||
OBI_INT64, /**< type int64_t */
|
||||
OBI_UINT32, /**< type uint32_t */
|
||||
OBI_UNIT64, /**< type uint64_t */
|
||||
OBI_STRING /**< type char* */
|
||||
} OBIDataType_t, *OBIDataType_p;
|
||||
|
||||
|
||||
/**
|
||||
* @brief OBIColumnHeader structure.
|
||||
*/
|
||||
|
||||
typedef struct OBIColumnHeader {
|
||||
bool little_endian_order; /**< endian byte order :
|
||||
- True : little endian
|
||||
- False: big endian
|
||||
*/
|
||||
int header_size_value; /**< size of the header: a multiple of PAGESIZE */
|
||||
int line_count; /**< number of lines of data */
|
||||
OBIDataType_t data_type; /**< type of the data */
|
||||
char* creation_date; /**< date of creation of the file */
|
||||
int version; /**< version of the OBIColumn */
|
||||
char* comments; /**< comments */>
|
||||
} OBIIntColumn_t, *OBIIntColumn_p;
|
||||
|
||||
|
||||
#endif /* OBICOLUMN_H_ */
|
||||
@ -1,5 +1,5 @@
|
||||
/****************************************************************************
|
||||
* OBIIntColumn prototype file *
|
||||
* OBIIntColumn header file *
|
||||
****************************************************************************/
|
||||
|
||||
/**
|
||||
@ -13,35 +13,69 @@
|
||||
#define OBIINTCOLUMN_H_
|
||||
|
||||
#include <stdio.h>
|
||||
#include <stdlib.h>
|
||||
|
||||
#include "obicolumn.h"
|
||||
|
||||
|
||||
/**
|
||||
* @brief enum for the OBIDataType.
|
||||
* @brief OBIIntColumn stucture.
|
||||
*/
|
||||
|
||||
typedef enum OBIDataType {
|
||||
OBI_VOID = 0, /**< data type not specified */
|
||||
OBI_INT32, /**< type int32_t */
|
||||
OBI_INT64, /**< type int64_t */
|
||||
OBI_UINT32, /**< type uint32_t */
|
||||
OBI_UNIT64, /**< type uint64_t */
|
||||
OBI_STRING /**< type str */
|
||||
} OBIDataType_t, *OBIDataType_p;
|
||||
|
||||
typedef struct OBIIntcolumn {
|
||||
|
||||
} OBIIntColumn_t, *OBIIntColumn_p;
|
||||
|
||||
/**
|
||||
* @brief Bried description of the function.
|
||||
* @brief Reads a memory block from an OBIIntColumn file.
|
||||
*
|
||||
* Longer description of the function. This part may refer to the parameters
|
||||
* of the function, like @p parameter.
|
||||
* @param parameter Description of the first parameter of the function.
|
||||
* @return Describe what the function returns.
|
||||
* @see http://website/
|
||||
* @note Something to note.
|
||||
* @warning Warning.
|
||||
* @param OBIIntColumn The OBIColumn that should be read.
|
||||
* @return A pointer on the first element of the block.
|
||||
*/
|
||||
|
||||
void test(int parameter);
|
||||
int* readMemoryBlock(int* OBIIntcolumn, int startingPosition, int memoryBlockSize);
|
||||
|
||||
|
||||
/**
|
||||
* @brief Writes a memory block line by line at the end of a file.
|
||||
*/
|
||||
|
||||
void writeMemoryBlock(int* OBIIntcolumn, int memoryBlockSize, char* fileName);
|
||||
|
||||
|
||||
/**
|
||||
* @brief Returns one line of an OBIColumn.
|
||||
*/
|
||||
|
||||
int readLine(int line);
|
||||
|
||||
|
||||
/**
|
||||
* @brief Creates a new file for a new version of the OBIColumn.
|
||||
*/
|
||||
|
||||
void newColumn(OBIIntcolumn* column);
|
||||
|
||||
|
||||
/**
|
||||
* @brief malloc for OBIIntColumn.
|
||||
*/
|
||||
|
||||
int* OBIIntMalloc();
|
||||
|
||||
|
||||
/**
|
||||
* @brief realloc for OBIIntColumn.
|
||||
*/
|
||||
|
||||
int* OBIIntRealloc();
|
||||
|
||||
|
||||
/**
|
||||
* @brief free for OBIIntColumn.
|
||||
*/
|
||||
|
||||
void OBIIntFree();
|
||||
|
||||
|
||||
#endif /* OBIINTCOLUMN_H_ */
|
||||
|
||||
Reference in New Issue
Block a user