Mercurial > repos > mvdbeek > sra_tools
annotate README.md @ 0:9f74a22d2060 draft default tip
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
author | mvdbeek |
---|---|
date | Wed, 04 Nov 2015 06:57:32 -0500 |
parents | |
children |
rev | line source |
---|---|
0
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
1 [![Build Status](https://travis-ci.org/mdshw5/sra-tools-galaxy.svg?branch=master)](https://travis-ci.org/mdshw5/sra-tools-galaxy) |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
2 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
3 The Galaxy tool wrappers contained in this tool shed repository rely on software developed by |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
4 the NCBI: http://github.com/ncbi/sra-tools. |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
5 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
6 # INSTALLATION |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
7 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
8 Please use the Galaxy admin interface to install from the toolshed: https://toolshed.g2.bx.psu.edu/view/matt-shirley/ncbi_sra_toolkit |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
9 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
10 This software release was designed to install using the Galaxy toolshed under Linux and MacOS operating systems on Intel x86-compatible 32/64 bit architectures. |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
11 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
12 *Build Requirements* |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
13 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
14 - bash |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
15 - git |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
16 - make |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
17 - gcc |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
18 - g++ |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
19 - perl |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
20 - libxml2 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
21 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
22 On a Debian OS use: |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
23 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
24 apt-get install build-essential libxml2-dev git |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
25 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
26 On a Mac with [command line tools](https://developer.apple.com/downloads/index.action) installed: |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
27 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
28 brew install git libxml2 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
29 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
30 CONTROLLED-ACCESS DATA |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
31 |
9f74a22d2060
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sra-tools commit 70fadb7e8972b1db550d0e067584930ce1ec8673-dirty
mvdbeek
parents:
diff
changeset
|
32 Encrypted, controlled-access data is not supported. |