Re: [Skim-app-users] Skim 1.6.20

Murray: > Does Skim _not_ support clicking on hyperlinks (say in a pdf > produced from a LaTeX source that used the hyperref package) to jump > to corresponding targets? > > It is now working in at least two LaTeX-sourced pdf's that use > hyperref to create links. Those links do work in the macOS

Re: [Skim-app-users] Search display suggestion

Christiaan: > No, that is not possible.That is what the search pdf feature does. > Finding all matches is a potentially slow, and therefore > asynchronous, process. So this cannot work together with quick > single match. (And searching just a page is not possible). I'm quite puzzled. Why is it

Re: [Skim-app-users] Search display suggestion

Christiaan: > It is the default. For that feature. In the other featur, it is > impossible, as it would interfere.For insurance, arrows generally > have a function in many contexts. I'm viewing without Option-Command-F. I prefer to use the Command-F (the search bar appears at the top) because

Re: [Skim-app-users] Search display suggestion

Christiaan: > The only thing here Skim does not do is tell you which number of the > hits you have selected.You can select all or multiple hits (also by > page, see the second view option) to select several hits, and move > through them using the arrow keys. Ok, fabulous! How about making the

Re: [Skim-app-users] Search display suggestion

Christiaan > To some extent, you can get this with the Search PDF feature. > Yes, the search field on the left, Option-Command-F. Ok, thanks. The main thing I am enamored about in the Firefox display is how it shows multiple hits simultaneously on the page and also how it reports the number of

Re: [Skim-app-users] Search display suggestion

Christiaan: > To some extent, you can get this with the Search PDF feature. I only know about command-F that provides a search feature. It does not mark all hits. Is there another search feature? If so, where do I find it? Tom ___ Skim-app-users

Re: [Skim-app-users] Problem using SKIM on two computers

Stephane: > If I annotate my file with SKIM from my desktop computer, when I > open the same document on my laptop, I cannot see my annotation > anymore ??? My documents are saved and synchronized with Dropbox. You have to "embed" the notes into the PDF. Here's my command line script for it:

Re: [Skim-app-users] skim failing to display figures

Christiaan: > This can only be a limitation of Apple’s PDFKit, which we use to > display the PDF. You should see the same problem in Preview. You are right! I suppose I'll have to write to Science to report the issue. Or maybe Apple? Tom Thomas D. Schneider, Ph.D. Senior Investigator

Re: [Skim-app-users] Skim popup problem

Christiaan > I actually have no idea. But it has almost certainly got something > to do with how the system treats the trash. Yes, I agree. > I am actually suprised > you are able to do what you can top, as for me that does not work. > Most file operations (like cp) just fail with “operation

Re: [Skim-app-users] zoom to fit

> That does not have any immediate effects. That only saves the > settings for newly opened PDFs in the future. So you probably saved > that with a tiny zoom factor. You can choose that with a larger zoom > factor, or with Automatically Resize checked. Or you can set the > default settings in the

Re: [Skim-app-users] zoom to fit

Christiaan: > There is currently a system bug that has the automatic zoom level a > bit off (basically it does not take the titlebar into account). That > will is fixed for the next release. But that should not disallow > page navigation. Ok. > > > This is called Automatically Resize, in the

Re: [Skim-app-users] [EXTERNAL] Re: zoom to fit

Christiaan: > This is called Automatically Resize, in the PDF menu (or the toolbar > if you have the button). It is also is indicated whether it is on or > off. I have that on. One PDF opened properly and is zoomed properly (so I can scroll to switch pages) - but I had set that up previously.

Re: [Skim-app-users] Extracting and deleting pages

Themis: > 1. Is it possible to extract multiple pages from a PDF? I don’t > seem to be able to select more than one thumbnails in the Contents > pane > > 2. Is it possible to delete selected pages? I cannot see an obvious > way. I use a tool called PDFsam Visual that does a great job of allowing

Re: [Skim-app-users] [EXTERNAL] Re: Skim fit

Christiaan: > > (Also "Automatically Resize" is difficult to work with - one has to > > click on it and then THE WINDOW GOES AWAY SO I DO NOT KNOW IT WAS SET! > > I have to click on PDF again to see whether I did set it or not. > > Please do not make it go away when it is being set. > I don't

Re: [Skim-app-users] go to right desktop on reopening

> No. Apple does not provide information about desktops for the > windows for us to access, let alone restore. Firefox can do this. To test it I opened 3 Firefox windows in three different spaces with different material in them. I then Force Quit Firefox. After it was gone I relaunched Firefox

Re: [Skim-app-users] [EXTERNAL] Skim 1.6.7

Christiaan: > Release notes for Skim version 1.6.7 > Bugs Fixed > * Fix initial fit to PDF. YAY!! THANK YOU!!! WORKS LIKE A CHARM! Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of Health National Cancer Institute Center for Cancer Research RNA

Re: [Skim-app-users] Puzzling Skim settings

Christiaan: > This is unfortunately a bug that slipped into the last release. The > "Fit" option should essentially do what you want, which is the same > as choosing Window > "Fit to PDF" right after opening the document. > Note that this still works. But apparently with the latest changes > the

Re: [Skim-app-users] Comments database for research

Julio: > But then I need to search on the comments of all the books that I > read. not just one by one. > > Do you know a software that can take all my notes with the pdf and > be my database in order to search for certain text on the comments > or highlighted phrases and jump to the pdf? > >

Re: [Skim-app-users] Feature suggestion: popup viewer activated only when a modifier key is pressed

Christiaan: > It is really a long standing design flaw in the system that the > notification is not send when the view moves out of the mouse rather > than the mouse out of the view. I’ll add some lines to hide the > preview when the view is scrolled. Thanks!!! I GREATLY appreciate your efforts

Re: [Skim-app-users] Feature suggestion: popup viewer activated only when a modifier key is pressed

Christiaan: > That is annoying, but there is nothing we can do about tgat, as the > system fails to give us any notification it is supposed to give us. I see. So it IS a bug but a timing one? Sometimes I act so fast that the OS cannot report to Skim quickly enough to turn it off? (I have

Re: [Skim-app-users] Feature suggestion: popup viewer activated only when a modifier key is pressed

Christiaan: > You can just move the mouse away. In general, but sometimes a reference popup holds on even to the next page! I kind of have to 'shake' it off! Tom ___ Skim-app-users mailing list Skim-app-users@lists.sourceforge.net

Re: [Skim-app-users] Feature suggestion: popup viewer activated only when a modifier key is pressed

Christiaan: > as I mouse around the pdf page, I "run over" the reference > hyperlinks etc, and the pop-up comes up inadvertently (and rather > frequently). Dmitri These popups are fine, but they stick around too much and I have to "shake them off" especially when I go to a new page. They

Re: [Skim-app-users] Skim 1.6.1

Christiaan: > A new version of Skim is available for download at > or using the built-in updater. > > Bugs Fixed > * Separate window title on Big Sur. Works beautifully now! THANKS! Tom Thomas D. Schneider, Ph.D. Senior Investigator National

Re: [Skim-app-users] The display of Skim changed

Christiaan: > We don’t tell it to do this. I don’t know why it would do that. There are a number of changes to macOS that degrade various things. Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of Health National Cancer Institute Center for Cancer Research

Re: [Skim-app-users] How to share notes between Skim users, please?

Gudrun: > How to exchange the document with annotated notes between us? You can embed the notes into the pdf. Here's a script to do it: https://alum.mit.edu/www/toms/ftp/skimembed Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of Health National Cancer

Re: [Skim-app-users] [Frontiers Zendesk] Re: broken PDF '#' vs '%23' on two different computers

Gerard: Thanks for following up on this. The person who supports Skim has posted on the Skim news group explaining that he thinks this is an Apple bug: https://sourceforge.net/p/skim-app/mailman/skim-app-users/?viewmonth=202011=10 (see the entries at the bottom of the page in reverse order.)

Re: [Skim-app-users] broken PDF '#' vs '%23' on two different computers

Christiaan: Thanks for looking at this. I told the journal about your messages stored at https://sourceforge.net/p/skim-app/mailman/skim-app-users/?viewmonth=202011=10 Do you have a URL for Apple feedback that would be appropriate? Tom ___

Re: [Skim-app-users] GoodReader callout bug

Jason: > I use GoodReader a lot as well. > FYI: The latest version can email a PDF with flattened annotations embedded > that can be seen in Skim. > Is this what you wanted? I just tried that - emailed a document to myself with flattening and looked in Skim. Indeed the callout box and arrow

Re: [Skim-app-users] GoodReader callout bug

Christiaan: > It sounds they added Line annotations, except they did not encode this as > such. Ok, thanks, maybe that's enough for them to fix it. This has been a severe bug for years. Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of Health National Cancer

Re: [Skim-app-users] Batch conversion from skim files to "embedded annotations?

Jan: > I have a number of PDFs which I have annotated with Skim with the > annotations in a separate ".skim" file. Is there some recommended way to > batch convert them so that the annotations are visible in other PDF > readers? Here's a script to convert one PDF:

Re: [Skim-app-users] Skim 1.5.10

Christiaan: * Display laser pointer cursor in Presentation. Thank you!!! * Toggle laser pointer cursor in Presentation by hitting 'l'. I was confused for a while because in some fonts on a tiny laptop screen 'i' looks like 'l' and '1'. 'l' is fine but the documentation could call it 'lower

Re: [Skim-app-users] laser-like dot for Skim

Christiaan: > I could implement that using a hidden preference. I am really > hesitant to have this by default. As long as there is a simple and fast way to set it that would be ok. For example, if I could call a script that set things or unset them later from the command line it would work. I

Re: [Skim-app-users] laser-like dot for Skim

Christiaan: > The only pointer on the screen I know of is the cursor, i.e. the > arrow. That is not shown in presentation mode, and should not be > shown. Otherwise I do not know about any pointer input device. I've used the mouse cursor as a (rather poor) pointer, almost certainly with Skim.

Re: [Skim-app-users] laser-like dot for Skim

Christiaan > There should not be a cursor i presentation mode anyway. I did not understand that at all. "Should" based on what? What is a "cursor i presentation mode"? Do you mean for Skim? Why not? Thanks, Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of

Re: [Skim-app-users] why is skim opening skype/facetime/etc?

> Here's the table. > \begin{table} Please provide a COMPLETE example that can be run with LaTeX without editing that shows the effect you are finding. For example, it may be that some package you are calling caused this, or maybe a hyper link reference is covering the table or ... Here are

Re: [Skim-app-users] why is skim opening skype/facetime/etc?

How about providing a TINY minimal example? Then maybe we can see why the link is being made. Tom Thomas D. Schneider, Ph.D. Senior Investigator National Institutes of Health National Cancer Institute Center for Cancer Research RNA Biology Laboratory Biological Information Theory

Re: [Skim-app-users] present a slideshow in a window instead of full screen

Daniel: > Skim is one of the apps I am using almost every day (BibDesk as well). Thanks! Same here except it is every hour. > While figuring out how to teach online, I found that there is a > 'missing' feature in Skim that would help me a lot when preparing > videos for online-teaching where

Re: [Skim-app-users] All old Skim annotations disappeared after SW update

> Thank you Carsten. Does this mean that all the prior annotations > have been lost in the pdfs? I'm sorry to see this potential loss. To avoid this kind of thing happening I alway embed my notes directly into the pdf. My little script for this is at:

Re: [Skim-app-users] quitting without prompt to save

jacob: > > Is it possible to quit without being prompted to save changes to > > open files? I highlight documents & leave many open simultaneously. > > Then I must click thru dozens of 'save changes' dialogue boxes before > > quitting. > > No. If you make changes to a document you are expected

Re: [Skim-app-users] Position after reload without PDF-TeX sync

Rob: > Easy solution I just tried was to go back to Sourceforge and grab the old > version > https://sourceforge.net/projects/skim-app/files/Skim/Skim-1.4.36/ > I just re-installed it over the newer version and was able to get back to a > useful build. Excellent! I did that with no problem.

Re: [Skim-app-users] Position after reload without PDF-TeX sync

Rin: > To add one more data point in case it's helpful, I also upgraded, > discovered this behavior, and went back to 1.4.36. I foolishly trashed the previous version ... though I suppose I could recover it from my backups. > My use case is working in LaTeX source in one window and monitoring

Re: [Skim-app-users] Position after reload without PDF-TeX sync

Rin: > In the previous > versions of Skim, the position in PDF document is not changed after > modified file is automatically reloaded. However, with Skim 1.4.37, the > position is reset to the first page of the document. How could I realize > the old behavior? I have the same effect with the

Re: [Skim-app-users] Skim constantly crashing when used as a viewer for LyX

Jerry: > When using Skim as a PDF viewer for LyX, Skim crashes frequently > when attempting to show a newly rendered version of the document. It > doesn’t crash the first time but usually on the second to maybe > fourth update from LyX. Does anyone else have this problem? I've had similar