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-# Using SBGrid with MacOS 10.15 'Catalina' |
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-SBGrid works with MacOS Catalina but the installation process requires a work-around to handle new filesystem controls. |
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-These controls impact the 'activation' process of our installation client and also the ability to install the software. |
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-Once the activation process is completed following the procedure below, the client can be used normally. The SBGrid software is then functional, though [32-bit applications](https://docs.google.com/spreadsheets/d/e/2PACX-1vSZEEdZhYIdRq0BoY-Aq8XFO1QSR6idkO72N2UeACWSG8-84gLlPqE_v9NrFO9na66gZ3_6PCSDUXGI/pubhtml?gid=1974952972&single=true) are not supported on 10.15 Catalina. |
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+# Using BioGrids with MacOS 10.15 'Catalina' |
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+BioGrids works with MacOS Catalina but the installation process requires a work-around to handle new filesystem controls. |
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+These controls impact the 'activation' process of our installation client and also the ability to install the software. |
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+Once the activation process is completed following the procedure below, the client can be used normally. The BioGrids software is then functional, though [32-bit applications](https://docs.google.com/spreadsheets/d/e/2PACX-1vSZEEdZhYIdRq0BoY-Aq8XFO1QSR6idkO72N2UeACWSG8-84gLlPqE_v9NrFO9na66gZ3_6PCSDUXGI/pubhtml?gid=1974952972&single=true) are not supported on 10.15 Catalina. |
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-Note that macOS now uses the z-shell (zsh) by default. |
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-This shell is also supported in SBGrid using the standard sbgrid.shrc file. |
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+Note that macOS now uses the z-shell (zsh) by default. |
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+This shell is also supported in BioGrids using the standard biogrids.shrc file. |
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## Installation : the easy way with the latest command line client, sbgrid-cli. |
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Activation with our latest command-line install client is possible in 3 steps, but a reboot is required to add the '/programs' path. |
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-### 1. Download the client, sbgrid-cli : |
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+### 1. Download the client, biogrids-cli : |
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First, download the latest install client from here |
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-[sbgrid-cli version 2.0.43](downloads/sbgrid-cli_2.0.43_macOS.tar.gz) |
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+[biogrids-cli version 2.0.43](downloads/biogrids_cli_2.0.43_mac.tar.gz) |
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-You can use *curl* to download the tarball directly in your terminal. |
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+You can use *curl* to download the tarball directly in your terminal. |
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This approach has the added benefit of not triggering the macOS "unidentified developer" Gatekeeper response which requires the *xattr* step below. |
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``` |
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-curl -LO https://sbgrid.org/wiki/downloads/sbgrid-cli_2.0.43_macOS.tar.gz |
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+curl -LO https://biogrids.org/wiki/downloads/biogrids_cli_2.0.43_mac.tar.gz |
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``` |
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+ |
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Untar and run the application to test. |
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Untar : |
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``` |
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-tar -zxf sbgrid-cli_2.0.43_macOS.tar.gz |
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+tar -zxf https://biogrids.org/wiki/downloads/biogrids_cli_2.0.43_mac.tar.gz |
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``` |
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-then run : |
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+then run : |
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``` |
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-cd sbgrid-cli |
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+cd biogrids-cli |
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-./sbgrid-cli |
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+./biogrids-cli |
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``` |
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You should see the application usage info. |
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-If you see a pop-up warning about "unidentified developer", you may need to strip apple's quartine extended attribute. |
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+If you see a pop-up warning about "unidentified developer", you may need to strip apple's quartine extended attribute. |
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Cancel the dialog and then run this in your terminal: |
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``` |
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-xattr -d com.apple.quarantine sbgrid-cli |
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+xattr -d com.apple.quarantine biogrids-cli |
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``` |
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-You should then be able to run the application normally. |
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+You should then be able to run the application normally. |
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|
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### 2. Activate your installation : |
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-To activate, use the credentials provided by email after [https://sbgrid.org/registration/register/](registration). |
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+To activate, use the credentials provided by email after [regsitration](https://biogrids.org/registration/register/). |
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``` |
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-./sbgrid-cli activate <your site> <your username> <your key> |
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+./biogrids-cli activate <your site> <your username> <your key> |
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``` |
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|
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### 3. Create link at /programs : |
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-The lastest MacOS provides the option to create links in the root partion via the */etc/synthetic.conf* file. |
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+The lastest MacOS provides the option to create links in the root partion via the */etc/synthetic.conf* file. |
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This file has the following format: |
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``` |
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#link target |
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-/programs /opt/sbgrid |
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+/programs /opt/biogrids |
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``` |
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- |
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-Note that the whitespace MUST be a tab character. Spaces will not work. |
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+ |
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+Note that the whitespace MUST be a tab character. Spaces will not work. |
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Here is a file for reference : [synthetic.conf](downloads/synthetic.conf). |
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-Thanks to Ron Rock at University of Chicago for pointing this out. |
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+Thanks to Ron Rock at University of Chicago for pointing this out. |
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### 4. Reboot |
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-You should then see this in your root partition (/) : |
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+You should then see this in your root partition (/) : |
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``` |
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key@key-mbp2:~/ $ ls -l / |
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@@ -89,21 +90,21 @@ drwxr-xr-x@ 11 root wheel 352 Apr 11 12:38 usr |
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lrwxr-xr-x@ 1 root admin 11 Apr 11 12:38 var -> private/var |
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``` |
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-From there, you can continue to install software with the installation client, or use the [https://sbgrid.org/wiki/client_install](GUI). |
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+From there, you can continue to install software with the installation client, or use the [GUI](https://biogrids.org/wiki/client_install). |
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They are not mutually exclusive. |
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-## Method 2, SBGrid graphical client, the not-so-easy way to activate. Requires 3 reboots. |
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+## Method 2, BioGrids graphical client, the not-so-easy way to activate. Requires 3 reboots. |
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Activation with our graphical client is not compatible with MacOS 10.15 "Catalina" without temporarily disabling System Integrity Protection (SIP) |
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-While the approach above is easier and recommended, it is possible to activate with the GUI by following the process below. |
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+While the approach above is easier and recommended, it is possible to activate with the GUI by following the process below. |
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-To create the /programs symlink in Catalina without using the /etc/synthetic.conf file, the system filesystem must be remounted as read/write. |
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+To create the /programs symlink in Catalina without using the /etc/synthetic.conf file, the system filesystem must be remounted as read/write. |
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To do that in Catalina, system integrity protection (SIP) must be disabled. |
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### 1. Disable SIP from Recovery mode |
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- Restart your Mac. |
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- Before macOS starts up, hold down Command-R and keep it held down until you see an Apple icon and a progress bar. Release. This boots you into Recovery. |
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- From the Utilities menu, select Terminal. |
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-- At the prompt run the following and then press Return: |
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+- At the prompt run the following and then press Return: |
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``` |
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csrutil disable |
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@@ -116,22 +117,22 @@ csrutil disable |
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To remount the disk as read/write, run : |
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``` |
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-sudo mount -uw / |
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+sudo mount -uw / |
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``` |
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-To create the SBGrid /programs link, run : |
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+To create the BioGrids /programs link, run : |
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``` |
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-sudo ln -s /opt/sbgrid /programs |
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+sudo ln -s /opt/biogrids /programs |
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``` |
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-To install the software, you can use the install client normally. It will create the required paths and install the software. After the initial installation, you can use the install client as in previous MacOS releases, even after the steps below. |
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+To install the software, you can use the install client normally. It will create the required paths and install the software. After the initial installation, you can use the install client as in previous MacOS releases, even after the steps below. |
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### 3. Re-enable SIP (optional) |
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- Restart your Mac. |
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- Before macOS starts up, hold down Command-R and keep it held down until you see an Apple icon and a progress bar. Release. This boots you into Recovery. |
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- From the Utilities menu, select Terminal. |
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-- At the prompt, re-enbale SIP with : |
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+- At the prompt, re-enbale SIP with : |
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``` |
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csrutil enable |
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@@ -141,7 +142,7 @@ csrutil enable |
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- From the menu, select Restart. |
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## How to stop nagging macOS update alerts |
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-It is possible to turn off the nagging pop ups. |
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+It is possible to turn off the nagging pop ups. |
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- Open System Preferences. |
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- Click on Software Update. |
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@@ -153,7 +154,7 @@ It is possible to turn off the nagging pop ups. |
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``` |
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-You will see : |
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+You will see : |
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``` |
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Ignored updates: |
