coot.md
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@@ -14,7 +14,7 @@ If capsules are enabled, the output should be :
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Active
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```
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-If capsules are InActive, they can be enable with the `sbcap on` command followed by `source /programs/sbgrid.shrc`.
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+If capsules are InActive, they can be enable with the `sbcap on` command followed by `source /programs/sbgrid.shrc` or `.cshrc` for tcsh users.
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### "Which COOT am I using?"
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@@ -34,8 +34,8 @@ $ coot --sbwhich
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By default we use the CCP4 release of COOT in SBGrid. This version is stable, supported and the same for MacOS and Linux. But it is easy to change.
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-### Next, what titles provide "coot" executables?
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-SBGrid capsules provide an additional set of flags for all executables, prefixed with `--sbapp:`. For more info see the [documentation for capsules here.](capsules.md) To list all the installed tiles that provide `coot`, use `--sbapp:l`
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+### What titles provide "coot" executables?
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+SBGrid capsules provide an additional set of flags for all executables, prefixed with `--sbapp:`. For more info see the [documentation for capsules here.](capsules) To list all the installed tiles that provide `coot`, use `--sbapp:l`
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```
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$ coot --sbapp:l
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@@ -166,6 +166,6 @@ Binary type: Linux-x86_64-scientific-linux-6.10-python-gtk2
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The version of `coot` changes to the version provided by the CCP4 version specified by CCP4_X.
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-For more info, see [capsules](capsules.md), and [version manangement](overrides.md).
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+For more info, see [capsules](capsules), and [version manangement](overrides).
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For questions or to report bugs, please email bugs@sbgrid.org
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