If what you want is to save a copy with embedded notes this is not what you
should use. If you run from Skim, then it is better to save from within Skim or
using AppleScript than using the command line script.
Christiaan
On May 9, 2015, at 7:15, humanengr wrote:
> To run single-file conversions from the keyboard, you can use the
> pdf-to-pdf_embed script in 'humanengr's Skim scripts' on
> http://sourceforge.net/p/skim-app/wiki/AppleScript/#user-contributed-scripts.
> The script contains the set-up instructions for the keyboard shortcut.
>
> On May 8, 2015, at 10:41 AM, Jan Jakob Bornheim <jjbornh...@gmail.com> wrote:
>
>>
>> On Fri, May 8, 2015 at 7:32 PM, Rob MacLeod <macl...@cvrti.utah.edu> wrote:
>> Hi
>>
>> Thanks guys for the rapid and licid response. I will continue to experiment
>> to find a workflow that allows me to take advantage of the benefits without
>> the mishaps.
>>
>> Is there a quick, keyboard approach to exporting the pdf with markup? I
>> could probably even handle an AppleScript type solution and bulk convert a
>> whole directory full of marked up assignments for my classes.
>>
>> Thanks,
>> Rob
>>
>> The Skimalot (http://sourceforge.net/p/skim-app/wiki/Shell_Scripts/) shell
>> script can handle batch converting an entire folder, if you're comfortable
>> using the terminal.
>>
>> Cheers,
>>
>> JJ
>>
>>
>>
>> On May 8, 2015, at 9:12 AM, Jan Jakob Bornheim <jjbornh...@gmail.com> wrote:
>>
>>> On Fri, May 8, 2015 at 5:03 PM, Christiaan Hofman <cmhof...@gmail.com>
>>> wrote:
>>>
>>> On May 8, 2015, at 15:12, Rob MacLeod wrote:
>>>
>>>> Hi,
>>>>
>>>> I have used Skim off and on for some years, just updated to the new
>>>> version, and appreciate a great deal of what the program offers. I drift
>>>> back to Preview at times but then get frustrated again with each new
>>>> version and return to Skim for a while. This relationship is a little
>>>> like serial monogamy and I am trying to figure out why I cannot commit to
>>>> Skim as my lifelong partner (-:
>>>>
>>>> The main reason I leave Skim is the clumsy file management it requires and
>>>> so I thought I would bring this up, perhaps as a topic long since
>>>> discussed and put to bed. So please point me at the answers, if they
>>>> exist somewhere on this list or the help pages.
>>>>
>>>> The clumsy part, of course, is the need to export the file each time I
>>>> wish to save a version I can read with another pdf reader or send to
>>>> another person. I use pdf markup for all my grading, much of the markup
>>>> of papers and grants I collaborate on, and most anything else students or
>>>> colleagues send to me for comment. So I guess I am a power user or at
>>>> least a committed user of pdf markup tools. I have to share the results
>>>> of those edits with others and most others do not use Skim--and I am not
>>>> likely to change this behavior. As a result of need to share, I need to
>>>> save conventional pdf files with the markup embedded and visible. Skim
>>>> makes this harder to do that I would like and I wonder why the Skim
>>>> designers figured their convention was useful. Why take a portable
>>>> document format and make is non-portable?
>>>>
>>>> I try to be very careful about my workflow, saving the file each time
>>>> through the export path, then ignoring the complaints from SKim when I
>>>> close the file. But I have slipped up and I have lost edits and I have
>>>> sent out strangely unmarked files to my students. I really should not
>>>> have to worry about this. Why is the default not to save files with
>>>> embedded markup? Can I change the default somehow to make it save
>>>> standard pdf files?
>>>>
>>>> Thanks in advance for any guidance and counseling I might need to get over
>>>> my hump with Skim and finally make it the tool I use all the time.
>>>>
>>>> Best
>>>>
>>>> Rob
>>>>
>>>>
>>>>
>>>> Rob MacLeod, PhD
>>>> Professor of Bioengineering and Internal Medicine
>>>> University of Utah
>>>> Scientific Computing and Imaging (SCI) Institute
>>>> Comprehensive Arrhythmia Research and MAnagement (CARMA)
>>>> Cardiovascular Research and Training Institute (CVRT)
>>>> 72 South Central Campus Drive
>>>> Salt Lake City, Utah 84112
>>>> Email: macl...@sci.utah.edu
>>>> URL: www.sci.utah.edu/~macleod
>>>>
>>>
>>>
>>>
>>> Yes, this has been discussed to death on this list before. Though I don't
>>> have the links ready. There is also a discussion of it on the Wiki. (And
>>> there is also no way this will change, so don't try.)
>>>
>>> The original reason for this is that when we started with Skim PDFKit did
>>> not allow saving notes to the PDF. So partly this is about backward
>>> compatibility. However this is by no means the only reason. There are many
>>> reasons to have this. It has the notes as a separate layer, so you also
>>> still have the original unedited PDF. Also, you can view the notes
>>> separately. Most of all, PDFKit's saving is too often really bad, it can
>>> lose you PDF data (partly because PDFKit only supports older versions of
>>> PDF), or it can save it inefficiently, and it often messes up the notes.
>>> Also, when it is password protected, PDFKit can not simply save it, unlike
>>> Skim. Moreover, saving and reason in Skim is because of this a lot faster.
>>> And then there is backward compatibility with files saved by Skim.
>>>
>>> Christiaan
>>>
>>>
>>>
>>>
>>>
>>>
>>> Obviously, a number of good reasons. I just wanted to add that PDFKit
>>> really does save incredibly inefficiently. I have a number of scans from
>>> old books downloaded from archive.org. The PDFs are usually around 30
>>> Mbytes. Saving them with embedded notes or in Preview will bloat it up to
>>> beyond 300 Mbytes, saving notes the Skim way leaves the size virtually
>>> unchanged. On a smaller scale, a similar effect can be seen with any
>>> scanned PDF. Also, PDFKit has trouble handling a lot of non-English
>>> characters. Up until Mac OS X 10.11, saving a PDF with certain fonts
>>> containing Umlauts or accented characters would always corrupt the entire
>>> PDF. Now with Yosemite, it only happens once every while, but it still
>>> incredibly frustrating. Once again, that does happen with the way Skim
>>> saves notes. For me, this was the feature that drew me to Skim in the first
>>> place.
>>>
>>> JJ
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>>
>>
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> Performance metrics, stats and reports that give you Actionable Insights
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Christiaan
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