HMSclient_CLI_install.md
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@@ -24,6 +24,41 @@ A GUI version is also available for MacOS / OSX - [installation instructions can
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**pip**
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pip is a package management system used to install and manage software packages written in Python. The software installation client is installable by pip. This may not be on you machine by default, instructions for adding it are included here.
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+ ### Binary releases : MacOS and Linux Installation
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+
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+ There is minimal installation needed for these binaries. They can be run from any location. Untar the archive, make the file executable if necessary, and run from your preferred location.
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+
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+ [Mac : 1.0.555, 2017-05-15](downloads/hmsgrid-1.0.555-Darwin.tgz)
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+
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+ [Linux : 1.0.555, 2017-05-15](downloads/hmsgrid-1.0.555-Linux.tgz)
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+
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+ ```
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+ $ tar -zxf hmsgrid-1.0.555-Darwin.tgz
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+
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+ $ cd hmsgrid-1.0.555-Darwin
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+
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+ $ ./hmsgrid
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+ usage:
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+ hmsgrid <command> [<command_args>]
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+
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+ Available commands are:
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+ activate activate new installation
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+ grids list available grids
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+ info print package metadata
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+ install install single package
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+ install-all install all packages from collection
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+ installed list installed packages
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+ list list available packages
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+ rebuild rebuild installation
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+ remove remove installed package
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+ resume resume interrupted installations
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+ update update package to latest release/version
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+ update-all update all packages to latest release/version
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+ updates list available updates for installed packages
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+ version print package version string
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+ hmsgrid: error: too few arguments
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+ ```
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+
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### pip - Mac Installation
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On mac, pip is available from [macports](https://www.macports.org/), [homebrew](http://brew.sh/), and [fink](http://finkproject.org/). It also can be added using **easy_install**. easy_install will install pip into your system python.
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@@ -101,7 +136,7 @@ You may be prompted for your sudo password to create /programs and /opt/hmsgrid.
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You may also be blocked from accessing BioGrids servers on port 873 and port 8080 by your institution's firewall. You can check if you can access [port 873 here](http://portquiz.net:873) and [port 8080 here](http://portquiz.net:8080)
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-For help, email *bugs@sbgrid.org.*
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+For help, email *bugs@biogrids.org.*
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### Installation on an external drive or USB key
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Currently the installer application installs the software tree in /opt/hmsgrid and uses a symlink at /programs. This link is required for the software to work, but in principle the software can be located anywhere and linked to /opt/hmsgrid. This functionality is not yet included in the BioGrids application, but can be set up manually with a symlink.
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@@ -114,9 +149,9 @@ Next move */opt/hmsgrid* to the USB key at */Volumes/hmsgrid_client_install*. Yo
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$ sudo mv /opt/hmsgrid /Volumes/hmsgrid_client_install/.
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-Now we have */Volumes/hmsgrid_client_install/sbgrid*. Create a symlink from */opt/hmsgrid* to */Volumes/hmsgrid_client_install/sbgrid*.
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+Now we have */Volumes/hmsgrid_client_install/hmsgrid*. Create a symlink from */opt/hmsgrid* to */Volumes/hmsgrid_client_install/hmsgrid*.
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- $ sudo ln -s /Volumes/hmsgrid_client_install/sbgrid /opt/hmsgrid
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+ $ sudo ln -s /Volumes/hmsgrid_client_install/hmsgrid /opt/hmsgrid
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The symlink at */programs* still points to */opt/hmsgrid*, and that is a link that points to the external location. Open the installer and add the desired applications. These will now install to the external drive.
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client_CLI_install.md
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@@ -23,6 +23,40 @@ A GUI version is also available for MacOS / OSX - [installation instructions can
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**pip**
25 25
pip is a package management system used to install and manage software packages written in Python. The software installation client is installable by pip. This may not be on you machine by default, instructions for adding it are included here.
26
+ ### Binary releases : MacOS and Linux Installation
27
+
28
+ There is minimal installation needed for these binaries. They can be run from any location. Untar the archive, make the file executable if necessary, and run from your preferred location.
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+
30
+ [Mac : 1.0.555, 2017-05-15](downloads/biogrids-1.0.555-Darwin.tgz)
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+
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+ [Linux : 1.0.555, 2017-05-15](downloads/biogrids-1.0.555-Linux.tgz)
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+
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+ ```
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+ $ tar -zxf biogrids-1.0.555-Darwin.tgz
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+
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+ $ cd biogrids-1.0.555-Darwin
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+
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+ $ ./biogrids
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+ usage:
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+ biogrids <command> [<command_args>]
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+
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+ Available commands are:
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+ activate activate new installation
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+ grids list available grids
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+ info print package metadata
47
+ install install single package
48
+ install-all install all packages from collection
49
+ installed list installed packages
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+ list list available packages
51
+ rebuild rebuild installation
52
+ remove remove installed package
53
+ resume resume interrupted installations
54
+ update update package to latest release/version
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+ update-all update all packages to latest release/version
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+ updates list available updates for installed packages
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+ version print package version string
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+ biogrids: error: too few arguments
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+ ```
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### pip - Mac Installation
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... ...
@@ -82,14 +116,14 @@ Available commands are:
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upgrade Upgrade package to latest version
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upgrade-all Upgrade all packages to latest version
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version Print package version string
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-sbgrid: error: too few arguments
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+biogrids: error: too few arguments
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```
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**4. Activate the installation**
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Enter your site and key which you should have received these by email.
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- $ sbgrid activate <site name> <user name> <activation key>
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+ $ biogrids activate <site name> <user name> <activation key>
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You may be prompted for your sudo password to create /programs and /opt/biogrids.
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... ...
@@ -101,7 +135,7 @@ You may be prompted for your sudo password to create /programs and /opt/biogrids
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You may also be blocked from accessing BioGrids servers on port 873 and port 8080 by your institution's firewall. You can check if you can access [port 873 here](http://portquiz.net:873) and [port 8080 here](http://portquiz.net:8080)
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-For help, email *bugs@sbgrid.org.*
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+For help, email *bugs@biogrids.org.*
105 139
106 140
### Installation on an external drive or USB key
107 141
Currently the installer application installs the software tree in /opt/biogrids and uses a symlink at /programs. This link is required for the software to work, but in principle the software can be located anywhere and linked to /opt/biogrids. This functionality is not yet included in the BioGrids application, but can be set up manually with a symlink.
... ...
@@ -114,9 +148,9 @@ Next move */opt/biogrids* to the USB key at */Volumes/biogrids_client_install*.
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$ sudo mv /opt/biogrids /Volumes/biogrids_client_install/.
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-Now we have */Volumes/biogrids_client_install/sbgrid*. Create a symlink from */opt/biogrids* to */Volumes/biogrids_client_install/sbgrid*.
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+Now we have */Volumes/biogrids_client_install/biogrids*. Create a symlink from */opt/biogrids* to */Volumes/biogrids_client_install/biogrids*.
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- $ sudo ln -s /Volumes/biogrids_client_install/sbgrid /opt/biogrids
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+ $ sudo ln -s /Volumes/biogrids_client_install/biogrids /opt/biogrids
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The symlink at */programs* still points to */opt/biogrids*, and that is a link that points to the external location. Open the installer and add the desired applications. These will now install to the external drive.
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