[Bioperl-guts-l] [15358] bioperl-run/trunk/DEPENDENCIES: Add DEPENDENCIES file.

Christopher John Fields cjfields at dev.open-bio.org
Tue Jan 13 00:13:26 EST 2009


Revision: 15358
Author:   cjfields
Date:     2009-01-13 00:13:26 -0500 (Tue, 13 Jan 2009)

Log Message:
-----------
Add DEPENDENCIES file.

Added Paths:
-----------
    bioperl-run/trunk/DEPENDENCIES

Added: bioperl-run/trunk/DEPENDENCIES
===================================================================
--- bioperl-run/trunk/DEPENDENCIES	                        (rev 0)
+++ bioperl-run/trunk/DEPENDENCIES	2009-01-13 05:13:26 UTC (rev 15358)
@@ -0,0 +1,85 @@
+BioPerl-run Dependencies
+
+NOTE : This file was auto-generated by the core helper script
+maintenance/dependencies.pl. Do not edit directly!
+
+The following packages are used by BioPerl. While not all are required for
+BioPerl to operate properly, some functionality will be missing without them.
+You can easily choose to install all of these during the normal installation
+process. Note that the PPM version of the BioPerl packages always tries to
+install all dependencies.
+
+The DBD::mysql, DB_File and XML::Parser modules require other applications or
+databases: MySQL, Berkeley DB, and expat respectively.
+
+NB: This list of packages is not authoritative. See the 'requires',
+'build_requires' and 'recommends' sections of Build.PL instead.
+
+ ==============================================================================
+| Distribution              | Module used - Description            | Min. ver. |
+|---------------------------+--------------------------------------+-----------|
+| IO-String                 | * IO::String - IO::File interface    |   None    |
+|                           |   for in-core strings                |           |
+|==============================================================================|
+| Used by:                                                                     |
+|------------------------------------------------------------------------------|
+| * Bio::Tools::Run::Phylo::Phylip::Consense - IO::String                      |
+ ==============================================================================
+ ==============================================================================
+| Distribution              | Module used - Description            | Min. ver. |
+|---------------------------+--------------------------------------+-----------|
+| IPC-Run                   | * IPC::Run - Child procs w/ piping,  |   None    |
+|                           |   redir and psuedo-ttys              |           |
+|==============================================================================|
+| Used by:                                                                     |
+|------------------------------------------------------------------------------|
+| * Bio::Tools::Run::Genemark - IPC::Run                                       |
+| * Bio::Tools::Run::Glimmer - IPC::Run                                        |
+| * Bio::Tools::Run::TigrAssembler - IPC::Run                                  |
+| * Bio::Tools::Run::tRNAscanSE - IPC::Run                                     |
+ ==============================================================================
+ ==============================================================================
+| Distribution              | Module used - Description            | Min. ver. |
+|---------------------------+--------------------------------------+-----------|
+| XML-Twig                  | * XML::Twig - A module for easy      |   None    |
+|                           |   processing of XML                  |           |
+|==============================================================================|
+| Used by:                                                                     |
+|------------------------------------------------------------------------------|
+| * Bio::Tools::Run::EMBOSSacd - XML::Twig                                     |
+ ==============================================================================
+ ==============================================================================
+| Distribution              | Module used - Description            | Min. ver. |
+|---------------------------+--------------------------------------+-----------|
+| bioperl                   | * Bio::Seq - NA                      |   None    |
+|==============================================================================|
+| Used by:                                                                     |
+|------------------------------------------------------------------------------|
+| * Bio::Tools::Run::Cap3 - Bio::Seq                                           |
+| * Bio::Tools::Run::Genscan - Bio::Seq                                        |
+| * Bio::Tools::Run::TribeMCL - Bio::Seq                                       |
+| * Bio::Tools::Run::Vista - Bio::Seq                                          |
+| * Bio::Tools::Run::Alignment::Amap - Bio::Seq                                |
+| * Bio::Tools::Run::Alignment::Clustalw - Bio::Seq                            |
+| * Bio::Tools::Run::Alignment::Kalign - Bio::Seq                              |
+| * Bio::Tools::Run::Alignment::Lagan - Bio::Seq                               |
+| * Bio::Tools::Run::Alignment::MAFFT - Bio::Seq                               |
+| * Bio::Tools::Run::Alignment::Muscle - Bio::Seq                              |
+| * Bio::Tools::Run::Alignment::Probalign - Bio::Seq                           |
+| * Bio::Tools::Run::Alignment::Probcons - Bio::Seq                            |
+| * Bio::Tools::Run::Alignment::Proda - Bio::Seq                               |
+| * Bio::Tools::Run::Alignment::StandAloneFasta - Bio::Seq                     |
+| * Bio::Tools::Run::Alignment::TCoffee - Bio::Seq                             |
+ ==============================================================================
+ ==============================================================================
+| Distribution              | Module used - Description            | Min. ver. |
+|---------------------------+--------------------------------------+-----------|
+| libwww-perl               | * HTTP::Request::Common - Functions  |   None    |
+|                           |   that generate HTTP::Requests       |           |
+|                           | * LWP - Libwww-perl                  |           |
+|==============================================================================|
+| Used by:                                                                     |
+|------------------------------------------------------------------------------|
+| * Bio::Installer::Generic - HTTP::Request::Common                            |
+| * Bio::Installer::Generic - LWP                                              |
+ ==============================================================================


Property changes on: bioperl-run/trunk/DEPENDENCIES
___________________________________________________________________
Name: svn:mime-type
   + text/plain
Name: svn:keywords
   + Author Date Id Rev URL
Name: svn:eol-style
   + native




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