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  • mz2

    @Adam-Buckley do you perhaps have some images set to be exported separately from the manuscript? I believe this could lead to exactly this problem. This is something we have resolved in the 1.3 version which will introduce also the annotation support, we got just side tracked shipping it because of macOS 10.12.4 throwing a wrench in our plans (now addressed with the latest update). Aside from fixing this, starting from 1.3, we are also now starting to export figures as a single figure, and will also be able to do format translations on the fly (e.g. all figures in PDF or TIFF).

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  • mz2

    @coolishen an update which resolves this is now available as a beta version (available from Manuscripts > Preferences > Updates > Inform me about pre-releases). Here's also a direct download link: https://rink.hockeyapp.net/manage/apps/140528/app_versions/201

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  • mz2

    @desprateFLY I have myself seen issues with macOS (not in an application specific way) lately where the "Recent" lists and all favourite locations in Finder dialogs go missing (to then reappear after reboot) – indeed I don't see in your example screenshot anything else in Recent either in Finder, which would be consistent with that. It does not mean the document's gone fortunately.

    Also, if a file would entirely fail to be saved, for example if disk is full or there is a disk failure of another kind, this would be reported by Manuscripts with an error dialog and it actually happens in a way where this application has very little control over it (operating system provided behaviour kicks in) so it would be very unlikely for there to be a Manuscripts specific bug at this level. There have been some past issues where the autosave functionality has failed to act, which we have resolved, but that autosave system kicks in after the initial save and this functionality of saving and error reporting on saves is provided by macOS in a form that's robust enough that we have not seen specifically this kind of reports before over 1.5 years of the app being out. I would ask you to search for the file with the extension ".manuscript" with Spotlight after rebooting your machine and running a Disk Utility check on your system disk. I realise this may not sound the most helpful advice :-(

    There are a few locations under your home directory which also contain additional data:

    There is some autosave information available under ~/Library/Containers/com.manuscripts.Manuscripts (~/Library/Containers/com.manuscripts.Manuscripts-setapp in case of the Setapp version) and some more under ~/Library/Group Containers/SJK358RN87.com.manuscripts.Manuscripts, although these are cleared on repeated app launches.

    If the document really doesn't begin to appear from anywhere, you can dig up also log messages emitted by Manuscripts with /Applications/Utilities/Console.app (by filtering for "Manuscripts" with the search box in that app) – if an issue would be encountered during save, that's where this would reside.

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  • mz2

    The update is now available here as well as the usual route as an update from the app (currently available to beta users, but assuming this checks out for beta users we will make the update urgently available to all users): https://rink.hockeyapp.net/apps/280aaebd99e1f12edc41b48d909db0c4/app_versions/201

    @hubob we indeed routinely test Manuscripts with beta versions of macOS, but we simply did not catch this one as it makes itself visible in a document specific way, because the release notes for the beta versions suggested absolutely no changes to the OS provided components we rely on, and because we were very close to the release of Manuscripts 1.3 which as we've noted on the newsletter will introduce new collaborative annotation functionality. It took a moment for us to readjust our release plans in a form that is safe and unlikely to introduce new issues despite the scale of sudden changes we needed to make.

    @EtherealMind I understand your frustration and I very much share it. What happened is that macOS effectively removed a very specific way of removing text from a document that's backed by the WebKit text editing system, and we needed to build a replacement for it (WebKit is embedded inside Safari, Mail, many other applications – but that component was not in many other applications using that specific facility, therefore we were affected in a form that would manifest with some document states that required this feature). This operating system change completely took us by surprise because it was not captured in the OS version specific tests we ran (to be expanded based on what we learned here), and because these changes were to my knowledge entirely undocumented.

    How macOS updates have become a thing where entirely undocumented changes that affect 3rd party applications in minor version updates happen, I really don't understand (incidentally there are rather scary changes in iOS 10.3 affecting the filesystem as well that I am glad I am not building functionality against at the moment), especially as macOS 10.12.4 is in large parts a bugfix update that fixes some PDF related functionality that has adversely affected many 3rd party applications!

    Goes perhaps without saying but and if you continue to be affected by any issue that causes glitches for you in macOS 10.12.4 still, please let us know asap via support@manuscriptsapp.com, attaching an example document even if you have done so in the past. We are now ready to make very fast action beta releases, it simply took us a while to replace the functionality that macOS took away.

    You may also wonder "why did Manuscripts break but this other app X which does similar things was not affected" – different apps use different sets of functionality provided by the OS out of the literally thousands (tens of thousands) of application programming interfaces that Apple provides for us 3rd party developers, and you only observe really the times when something like this goes through everyone's testing out in the open. We were unlucky and unprepared this time, and as noted above we have certainly taken the lessons here on extending the OS prerelease testing we complete, and assuming basal level undocumented changes to macOS happen now at any time without warning.

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  • mz2

    @Andy-B, @nicholas.gizzi, @Marwan-Darwish indeed, the issue is purely with presentation (macOS 10.12.4 throws a new unexpected wrench in the content loading process). I'm very sorry it's taking us multiple days to ship this, it's just so core to the app that I need to be absolutely sure I don't introduce new issues (and that I indeed make the error reporting at this part of the app launch / document loading more robust so you won't get similar scare of "is the content there" again).

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  • mz2

    @Renato this is due to an issue introduced in the macOS 10.12.4 update – we are working around the issue, testing an update with a workaround, and will make it available as a beta during tomorrow.

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  • mz2

    @EtherealMind the issue is purely with Apple has introduced some unexpected changes (bugs, really) in a part of an OS provided framework that Manuscripts relies on when it's presenting the content. This OS issue trips up Manuscripts with some documents when it's presenting the content. I am testing an update which resolves this, please bear with us and the update will be with you during tomorrow in the beta channel.

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  • mz2

    @hubob update with both still working through internal QA. We'll get it in beta asap. Somewhat slowed down by macOS 10.12.4 introducing some new OS level issues that we are working around…

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  • mz2

    @gustaf there's a few methods provided in the amsmath package for this: https://www.sharelatex.com/learn/Aligning_equations_with_amsmath – I'm afraid I don't remember 100% if MathJaX (which we use for typesetting math) implements any or all of these amsmath extensions (I know we do support many other AMS math features through it).

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  • mz2

    @martinh16 is this happening for specific references? Is there any chance you could share a BibTeX or EndNote XML export of your Mendeley library with us via support@manuscriptsapp.com and point out example cases where this is happening for you, please?

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