Bug report: wrong unicode conversion from JabRef
Herbert Voss identified part of my issue of an accented character in a
bibiography citation is the bib_key. Removing the ã from the bib_key and
leaving it in the first author's name produced the attached citation image.
In the doc's preamble I inserted:
\usepackage{newunicodechar}
\newunicodechar{ã}{\~{a}}
but the resulting citation was still wrong.
Can this be fixed?
TIA,
Rich
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Re: JabRef insertion to LyX fails with accented character
On Wed, 3 Jan 2024, Herbert Voss wrote: I suppose again the "mergedate=..." option problem in the setting of biblatex. Herbert, That's long gone. In general biber uses the encoding from the main document unless you explicitely call biber --bibencoding=latin9 And I've not done that. Looks to me like these two are the source of the problems. yes and no, because the bibliography is wrong, but should have some entries. It is only a warning not an error. Yes, changing the citation style from `Biblatex' to `Biblatex (natbib mode)' allowed the bibliography to be included in the PDF. Why only with non-accented characters remains unanswered, but I doubt the expected audience for this doc will notice any difference. Many thanks, Rich-- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef insertion to LyX fails with accented character
Am 03.01.24 um 16:51 schrieb Rich Shepard: On Wed, 3 Jan 2024, Herbert Voss wrote: every problem is listed in the logfiles ... The .log file, line 725: LaTeX Warning: Citation 'Ant=E3o2021' on page 5 undefined on input line 324. Rich, I suppose again the "mergedate=..." option problem in the setting of biblatex. .blg The biodiversity.blg: INFO - Writing 'biodiversity.bbl' with encoding 'latin9' In general biber uses the encoding from the main document unless you explicitely call biber --bibencoding=latin9 INFO - Output to biodiversity.bbl WARN - I didn't find a database entry for 'Ant=E3o2021' (section 0) INFO - WARNINGS: 1 Two things: 1. Where is biber finding the latin9 encoding? 2. The string E3 is a hex color, not ã. Looks to me like these two are the source of the problems. yes and no, because the bibliography is wrong, but should have some entries. It is only a warning not an error. Herbert -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef insertion to LyX fails with accented character
On Wed, 3 Jan 2024, Herbert Voss wrote: every problem is listed in the logfiles ... Herbert, Just re-exported to LaTeX (pdflatex) and ran pdflatex and biber. .log The .log file, line 725: LaTeX Warning: Citation 'Ant=E3o2021' on page 5 undefined on input line 324. .blg The biodiversity.blg: $ biber biodiversity INFO - This is Biber 2.19 INFO - Logfile is 'biodiversity.blg' INFO - Reading 'biodiversity.bcf' INFO - Found 12 citekeys in bib section 0 INFO - Processing section 0 INFO - Looking for bibtex file '/home/rshepard/documents/jabrefdb.bib' for section 0 INFO - LaTeX decoding ... INFO - Found BibTeX data source '/home/rshepard/documents/jabrefdb.bib' INFO - Overriding locale 'en-US' defaults 'variable = shifted' with 'variable = non-ignorable' INFO - Overriding locale 'en-US' defaults 'normalization = NFD' with 'normalization = prenormalized' INFO - Sorting list 'nyt/global//global/global' of type 'entry' with template 'nyt' and locale 'en-US' INFO - No sort tailoring available for locale 'en-US' INFO - Writing 'biodiversity.bbl' with encoding 'latin9' INFO - Output to biodiversity.bbl WARN - I didn't find a database entry for 'Ant=E3o2021' (section 0) INFO - WARNINGS: 1 Two things: 1. Where is biber finding the latin9 encoding? 2. The string E3 is a hex color, not ã. Looks to me like these two are the source of the problems. Thanks, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef insertion to LyX fails with accented character
Am 03.01.24 um 15:41 schrieb Rich Shepard: Now I've learned how to insert accented characters using my keyboard I corrected the lead author's name in JabRef from Antao to Antão. This morning when I tried compiling the document with that citation it failed to find the non-accented record in the .bib. I deleted the ??.?? citation and tried to push the accented one to the document. It keeps failing; the citation is still ??.??. I'm really surprised that this happens. Rich, every problem is listed in the logfiles ... .log .blg Herbert Is this a LyX or JabRef issue? TIA, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
JabRef insertion to LyX fails with accented character
Now I've learned how to insert accented characters using my keyboard I corrected the lead author's name in JabRef from Antao to Antão. This morning when I tried compiling the document with that citation it failed to find the non-accented record in the .bib. I deleted the ??.?? citation and tried to push the accented one to the document. It keeps failing; the citation is still ??.??. I'm really surprised that this happens. Is this a LyX or JabRef issue? TIA, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef [RESOLVED]
On Mon, 1 Jan 2024, Rich Shepard wrote: An authors' name is Antao with the second 'a' accented with a tilde. I'm not finding the proper syntax to produce that in the BibTeX source. Found the solution that works here with Slackware and Xfce4. In ~/.Xmodmap I added the line keycode 133 = Multi_key Opened JabRef and selected the paper with the first author's name Antão. By pressing/releasing the windoze flag key off the left side of the space bar, then pressing ~ and a there's now an ã in the JabRef entry, as well as in this urxvt terminal running alpine. :-) Thanks, everyone! Regards, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, Richard Kimberly Heck wrote:
I'm seeing odd results with this as well. If I use the attached bib file,
then \~A shows up just fine, but \~a does not. In the bbl file, it appears
as:
\begin{thebibliography}{1}
\bibitem{Ant:Test}
Ant\ {a}o \~Antonia.
\newblock Whatever.
\newblock {\em Good One}, 2023.
\end{thebibliography}
Note the deleted tilde in the first name. The tilde has been moved to a
non-breaking space.
Riki,
I, too, saw the blank replacing the tilde.
I just set a keyboard key to Compose. When I resolve the issue of no
bibliography in the pdflatex PDF I'll play with the accent issue.
Thanks,
Rich
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Re: Adding accented character in JabRef
On 1/2/24 11:51, Rich Shepard wrote:
On Tue, 2 Jan 2024, Richard Kimberly Heck wrote:
Is JabRef saving them that way? I've had problems with it saving such
things as Unicode.
Riki,
Nope. It tells me there's an unexpected '(' in the string.
I'm seeing odd results with this as well. If I use the attached bib
file, then \~A shows up just fine, but \~a does not. In the bbl file, it
appears as:
\begin{thebibliography}{1}
\bibitem{Ant:Test}
Ant\ {a}o \~Antonia.
\newblock Whatever.
\newblock {\em Good One}, 2023.
\end{thebibliography}
Note the deleted tilde in the first name. The tilde has been moved to a
non-breaking space.
Riki
@Article{Ant:Test,
author = {Ant\~{a}o \~Antonia},
journal = {Good One},
title = {Whatever},
year= {2023},
}
@Comment{jabref-meta: databaseType:bibtex;}
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Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, Richard Kimberly Heck wrote:
Is JabRef saving them that way? I've had problems with it saving such things
as Unicode.
Riki,
Nope. It tells me there's an unexpected '(' in the string.
I'll ask on the slackware mail list how to set a compose key using the
right-side alt key.
Sigh,
Rich
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Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, Paul Rubin wrote: I forget which Linux distro you use, but you might want to check whether there is a keyboard layout option for the compose key. There is on Mint. I set it to the right alt key, so I can just type right-alt, " and a letter (three separate key strokes, not a chord) to get an umlaut or right-alt, ~, n to get ñ, etc. Paul, I use Slackware. In ~/.keymap I have: # Exchange the left Control key and the Caps Lock key on the keyboard keymaps 0-2,4-6,8-9,12 keycode 58 = Control keycode 29 = Caps_Lock I'll ask on the slackware mail list how to create a compose key. Thanks, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
On 1/2/24 09:16, Rich Shepard wrote:
On Tue, 2 Jan 2024, Herbert Voss wrote:
\~a or \~{a}
However, you should be able to insert directly ã
Herbert,
It didn't like the first two. I need to learn how to enter it directly in
using /usr/share/X11/locale/en_US.UTF-8/Compose.
Thanks,
Rich
Rich,
I forget which Linux distro you use, but you might want to check whether
there is a keyboard layout option for the compose key. There is on Mint.
I set it to the right alt key, so I can just type right-alt, " and a
letter (three separate key strokes, not a chord) to get an umlaut or
right-alt, ~, n to get ñ, etc.
Paul
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Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, José Matos wrote: https://en.wikipedia.org/wiki/AltGr_key José, That explains it: there's not an alt-graph key on US keyboards. Thanks, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
On Tue, 2024-01-02 at 06:17 -0800, Rich Shepard wrote: > Herbert, > > What's the AltGr chord? https://en.wikipedia.org/wiki/AltGr_key -- José Abílio -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, Herbert Voss wrote: sure ... but also Linux: AltGr+a Herbert, What's the AltGr chord? Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
On Tue, 2 Jan 2024, Herbert Voss wrote:
\~a or \~{a}
However, you should be able to insert directly ã
Herbert,
It didn't like the first two. I need to learn how to enter it directly in
using /usr/share/X11/locale/en_US.UTF-8/Compose.
Thanks,
Rich
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Re: Adding accented character in JabRef
On Tue, Jan 2, 2024 at 5:29 AM Herbert Voss wrote: > > > Am 02.01.24 um 11:20 schrieb Kees Zeelenberg: > > Herbert Voss wrote: > >> However, you should be able to insert directly ã > > Isn't this only possible with either a keyboard that has the symbol > directly or a keyboard with dead keys? > > sure ... but also > > Win: Alt+0227 > macOS: Alt+n a > Linux: AltGr+a > > > Or use your favorite unicode character app to insert, I use kcharselect -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
Am 02.01.24 um 11:20 schrieb Kees Zeelenberg: Herbert Voss wrote: However, you should be able to insert directly ã Isn't this only possible with either a keyboard that has the symbol directly or a keyboard with dead keys? sure ... but also Win: Alt+0227 macOS: Alt+n a Linux: AltGr+a Herbert -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
RE: Adding accented character in JabRef
Herbert Voss wrote: > However, you should be able to insert directly ã Isn't this only possible with either a keyboard that has the symbol directly or a keyboard with dead keys? -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Adding accented character in JabRef
Am 01.01.24 um 23:52 schrieb Rich Shepard:
An authors' name is Antao with the second 'a' accented with a tilde.
I'm not
finding the proper syntax to produce that in the BibTeX source.
I tried {~}a and \{~}a and some other variants without success.
\~a or \~{a}
However, you should be able to insert directly ã
Herbert
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Re: Adding accented character in JabRef
On 1/1/24 17:52, Rich Shepard wrote:
An authors' name is Antao with the second 'a' accented with a tilde.
I'm not
finding the proper syntax to produce that in the BibTeX source.
I tried {~}a and \{~}a and some other variants without success.
Is JabRef saving them that way? I've had problems with it saving such
things as Unicode.
Riki
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Adding accented character in JabRef
An authors' name is Antao with the second 'a' accented with a tilde. I'm not
finding the proper syntax to produce that in the BibTeX source.
I tried {~}a and \{~}a and some other variants without success.
A cluestick is needed.
TIA,
Rich
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Re: Jabref error
Am 17.05.22 um 13:00 schrieb Herbert Voss: Am 17.05.22 um 11:24 schrieb Wolfgang Engelmann: Slightly OT I use jabref as a reference manager for including literature in my lyx documents. I get a very annoying error > The library has been modified by another program and I don't know how to handle it. I use JabRef 5.6--2022-04-25--5c9d898 Linux 5.10.0-14-amd64 amd64 and according to a search in the internet this error should not occur in version 5.6 anymore. Has somebody a solution? I tried various changes in the preferences, without success so far. Another program or instance of JabRef changed the current open file. You could _reload_ the bib file and save it again. Herbert Thanks, Joel and Herbert, for the proposals. I used Herberts for the time being and will collect the case if I run into it again and send it to the JabRef maintainers. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref error
Am 17.05.22 um 11:24 schrieb Wolfgang Engelmann: Slightly OT I use jabref as a reference manager for including literature in my lyx documents. I get a very annoying error > The library has been modified by another program and I don't know how to handle it. I use JabRef 5.6--2022-04-25--5c9d898 Linux 5.10.0-14-amd64 amd64 and according to a search in the internet this error should not occur in version 5.6 anymore. Has somebody a solution? I tried various changes in the preferences, without success so far. Another program or instance of JabRef changed the current open file. You could _reload_ the bib file and save it again. Herbert -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref error
On Tue, May 17, 2022 at 03:25 Wolfgang Engelmann wrote: > Slightly OT > > I use jabref as a reference manager for including literature in my lyx > documents. > I get a very annoying error > > The library has been modified by another program > and I don't know how to handle it. > > I use > JabRef 5.6--2022-04-25--5c9d898 > Linux 5.10.0-14-amd64 amd64 > > and according to a search in the internet this error should not occur in > version 5.6 anymore. > > Has somebody a solution? I tried various changes in the preferences, > without success so far. > > Wolfgang > -- > lyx-users mailing list > lyx-users@lists.lyx.org > http://lists.lyx.org/mailman/listinfo/lyx-users <http://lists.lyx.org/mailman/listinfo/lyx-users> > Wolfgang, I have seen the same message and I ignore it (it has never caused me problems). I also keep my .bib in a git repository to provide additional assurance/monitoring regarding changes. I recommend raising this to JabRef developers, particularly if you’re able to reliably reproduce the behavior through some repeatable process. Thanks, Joel -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Jabref error
Slightly OT I use jabref as a reference manager for including literature in my lyx documents. I get a very annoying error > The library has been modified by another program and I don't know how to handle it. I use JabRef 5.6--2022-04-25--5c9d898 Linux 5.10.0-14-amd64 amd64 and according to a search in the internet this error should not occur in version 5.6 anymore. Has somebody a solution? I tried various changes in the preferences, without success so far. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef entry warning
Paul, this is why I am getting irritated at the (ie his) persistent lack of sending in MWEs. Having to go through this (and every time) borders on the rude, and frustrates people like you (and me) who want to help. A small file such as your dummy file, producing the error with the required files allows anyone to just run the sucker and see where the issue comes from. Then one can also open the BIB file with another tool (I like BibDesk on the Mac) and see what errors this flags. I also find, when I have such an issue myself, reducing the file to nothing else but the error producing text often makes me find the error :-)-O Never mind (him) sending in stuff with typos. el 12/10/2021 20:56, Paul A. Rubin wrote: [...] I turned your entry into a .bib file, cited it in a dummy document, and compiled with biblatex. It specifically flagged the first entry that ended with a comma. I think the "name" in the error message is because it thinks that, after that last comma, there will be another name = value pair in the field that it never finds (due to the closing brace). Not the ideal error message in my opinion, but deleting the surplus comma did fix it. I spotted the "and and" Maria flagged, but in my test that did not cause an error message, it just mucked up the printed citation. [...] -- To email me replace 'nospam' with 'el' -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef entry warning
On 10/12/21 2:31 PM, Rich Shepard wrote:
On Tue, 12 Oct 2021, Paul A. Rubin wrote:
You have commas at the end of several fields (inside the closing curly
brace), including institution, which I think is triggering the error
message.
Paul,
All key:value pairs end with commas except for the last one.
You also have a few places with a funky dash separating a pair of
numbers,
rather than a double dash ('--'). That might be the result of copying
from
a PDF and pasting. I don't know if that will also cause any indigestion.
Yes, that's not uncommon. I try to catch and repair them when I enter the
document in JabRef, but aren't always successful. Now corrected.
The error specified the document name, not any key:value pair between the
opening and closing braces:
WARN - Name in key 'Paul2012' is empty (probably consecutive 'and'):
skipping entry 'Paul2012'
The name key has no 'and' in it.
While this is a warning, not an error, I'd still like to have biber
accept
it as correct.
Still puzzled,
Rich
I turned your entry into a .bib file, cited it in a dummy document, and
compiled with biblatex. It specifically flagged the first entry that
ended with a comma. I think the "name" in the error message is because
it thinks that, after that last comma, there will be another name =
value pair in the field that it never finds (due to the closing brace).
Not the ideal error message in my opinion, but deleting the surplus
comma did fix it.
I spotted the "and and" Maria flagged, but in my test that did not cause
an error message, it just mucked up the printed citation.
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Re: JabRef entry warning
On Tue, 12 Oct 2021, Maria Gouskova wrote: Maybe it was the two "ands" in a row in the author field: Maria, Yep, that's the problem. It's like the reading test where the paragraph has the word 'the' twice, once at the end of a line, the other at the beginning of the following line. I hadn't noticed that when I looked at each field, but your fresh eyes caught it. Thank you very much. Stay well, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef entry warning
On Tue, 12 Oct 2021, Paul A. Rubin wrote:
You have commas at the end of several fields (inside the closing curly
brace), including institution, which I think is triggering the error
message.
Paul,
All key:value pairs end with commas except for the last one.
You also have a few places with a funky dash separating a pair of numbers,
rather than a double dash ('--'). That might be the result of copying from
a PDF and pasting. I don't know if that will also cause any indigestion.
Yes, that's not uncommon. I try to catch and repair them when I enter the
document in JabRef, but aren't always successful. Now corrected.
The error specified the document name, not any key:value pair between the
opening and closing braces:
WARN - Name in key 'Paul2012' is empty (probably consecutive 'and'):
skipping entry 'Paul2012'
The name key has no 'and' in it.
While this is a warning, not an error, I'd still like to have biber accept
it as correct.
Still puzzled,
Rich
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Re: JabRef entry warning
On Tue, Oct 12, 2021 at 2:01 PM Paul A. Rubin wrote:
> On 10/12/21 1:21 PM, Rich Shepard wrote:
> > On Tue, 12 Oct 2021, Paul A. Rubin wrote:
> >
> >> You mention 'Paul2012' in the warning but show the entry with key
> >> 'Paul2017'. Is one of those a typo, or did you show us the wrong entry?
> >
> > Paul2021,
> >
> > :-)
> >
> > Probably need to re-caffinate. Corrected entry just posted.
> >
> > Thanks,
> >
> > Rich
> Rich,
>
> You have commas at the end of several fields (inside the closing curly
> brace), including institution, which I think is triggering the error
> message.
>
> You also have a few places with a funky dash separating a pair of
> numbers, rather than a double dash ('--'). That might be the result of
> copying from a PDF and pasting. I don't know if that will also cause any
> indigestion.
>
> Paul
>
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Maybe it was the two "ands" in a row in the author field:
author = {Paul, A.P. and Paretti, N.V. and MacCoy, D.E. *and and* Brasher,
A.M.D.},
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Re: JabRef entry warning
On 10/12/21 1:21 PM, Rich Shepard wrote:
On Tue, 12 Oct 2021, Paul A. Rubin wrote:
You mention 'Paul2012' in the warning but show the entry with key
'Paul2017'. Is one of those a typo, or did you show us the wrong entry?
Paul2021,
:-)
Probably need to re-caffinate. Corrected entry just posted.
Thanks,
Rich
Rich,
You have commas at the end of several fields (inside the closing curly
brace), including institution, which I think is triggering the error
message.
You also have a few places with a funky dash separating a pair of
numbers, rather than a double dash ('--'). That might be the result of
copying from a PDF and pasting. I don't know if that will also cause any
indigestion.
Paul
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Re: JabRef entry warning
On Tue, 12 Oct 2021, Paul A. Rubin wrote: You mention 'Paul2012' in the warning but show the entry with key 'Paul2017'. Is one of those a typo, or did you show us the wrong entry? Paul2021, :-) Probably need to re-caffinate. Corrected entry just posted. Thanks, Rich -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: JabRef entry warning
On Tue, 12 Oct 2021, Kornel Benko wrote:
Warning from 'Paul2012', but you cite 'Paul2017' here.
Kornel,
Mea culpa! The proper entry is:
@techreport{Paul2012,
abstract = {As part of the National Water-Quality Assessment Program of
the U.S.
Geological Survey, this study examines the occurrence of nine trace
elements in bed sediment of varying mineralogy and land use and assesses
the possible effects of these trace elements on
aquatic-macroinvertebrate
community structure. Samples of bed sediment and macroinvertebrates
were collected from 154 streams at sites representative of undeveloped,
...
and Naididae all demonstrated resilience to trace-element exposure
and, in some cases, possible changes in physical habitat within stream
ecosystems. The taxa characteristics within the Ozark Highland ecoregion
were different than other ecoregions as evidenced by generally more
diverse mayfly populations. In addition, Baetis sp. was common and
dominated many of the mayfly populations found in the Rocky Mountain
streams within the Mountain Southern Rockies and Mountain Northern
Rockies ecoregions; however, within the Ozark Highland ecoregion,
Tricorythodes sp. appeared to be more common than Baetis sp.},
author = {Paul, A.P. and Paretti, N.V. and MacCoy, D.E. and and
Brasher, A.M.D.},
institution = {U.S. Geological Survey Scientific Investigations Report
2012–5272,},
keywords = {streams, rivers, benthos, macroinvertebrates, sediments,
land use, trace elements, statistics, metals},
number = {Scientific Investigations Report 2012–5272,},
title = {{The occurrence of trace elements in bed sediment collected
from areas of varying land use and potential effects on stream
macroinvertebrates in the conterminous western United States, Alaska, and
Hawaii, 1992–2000.}},
year = {2012}
}
I redacted most of the abstract to save space as the issue is with the name.
Thanks for pointing out my mistake,
Rich
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Re: JabRef entry warning
On 10/12/21 1:00 PM, Rich Shepard wrote:
Biber tells me "WARN - Name in key 'Paul2012' is empty (probably
consecutive
'and'): skipping entry 'Paul2012'" and the entry in the jabrefdb.bib is:
@techreport{Paul2017,
abstract = {This paper summarizes the application of algae as
indicators of nutrient
pollution in water quality management. It describes the use of algal
indicators to develop water quality diagnostics for nutrient
pollution
in the United States (U.S.) and then reviews scientific developments
in the use and application of algal indicators across the world.
The paper is intended as a technical resource for the water quality
manager/practitioner seeking to utilize algae to detect the presence
of nutrient pollution and to estimate the risks of nutrient pollution
in adversely affecting the condition of stream ecosystems.},
author = {Paul, M.J.},
institution = {Tetra Tech, Inc./ Center for Ecological Sciences},
keywords = {streams, rivers, lakes, ponds, algae, pollution, water
quality, indicators},
pagetotal = {44},
title = {{Algal Indicators in Streams: A Review of Their
Application in Water Quality Management of Nutrient Pollution}},
type = {techreport},
year = {2017}
}
I'm not seeing the empty error in the name. Why does biber find it empty?
Rich
Rich,
You mention 'Paul2012' in the warning but show the entry with key
'Paul2017'. Is one of those a typo, or did you show us the wrong entry?
Paul2021
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Re: JabRef entry warning
Am Tue, 12 Oct 2021 10:00:08 -0700 (PDT)
schrieb Rich Shepard :
> Biber tells me "WARN - Name in key 'Paul2012' is empty (probably consecutive
> 'and'): skipping entry 'Paul2012'" and the entry in the jabrefdb.bib is:
> @techreport{Paul2017,
> abstract = {This paper summarizes the application of algae as
> indicators of
> nutrient pollution in water quality management. It describes the use of algal
> indicators to develop water quality diagnostics for nutrient pollution
> in the United States (U.S.) and then reviews scientific developments
> in the use and application of algal indicators across the world.
> The paper is intended as a technical resource for the water quality
> manager/practitioner seeking to utilize algae to detect the presence
> of nutrient pollution and to estimate the risks of nutrient pollution
> in adversely affecting the condition of stream ecosystems.},
> author = {Paul, M.J.},
> institution = {Tetra Tech, Inc./ Center for Ecological Sciences},
> keywords = {streams, rivers, lakes, ponds, algae, pollution, water
> quality,
> indicators}, pagetotal = {44},
> title = {{Algal Indicators in Streams: A Review of Their Application in
> Water
> Quality Management of Nutrient Pollution}}, type = {techreport},
> year = {2017}
> }
>
> I'm not seeing the empty error in the name. Why does biber find it empty?
>
> Rich
>
Warning from 'Paul2012', but you cite 'Paul2017' here.
Kornel
pgp0Z5TQ3ELx2.pgp
Description: Digitale Signatur von OpenPGP
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JabRef entry warning
Biber tells me "WARN - Name in key 'Paul2012' is empty (probably consecutive
'and'): skipping entry 'Paul2012'" and the entry in the jabrefdb.bib is:
@techreport{Paul2017,
abstract = {This paper summarizes the application of algae as
indicators of nutrient
pollution in water quality management. It describes the use of algal
indicators to develop water quality diagnostics for nutrient pollution
in the United States (U.S.) and then reviews scientific developments
in the use and application of algal indicators across the world.
The paper is intended as a technical resource for the water quality
manager/practitioner seeking to utilize algae to detect the presence
of nutrient pollution and to estimate the risks of nutrient pollution
in adversely affecting the condition of stream ecosystems.},
author = {Paul, M.J.},
institution = {Tetra Tech, Inc./ Center for Ecological Sciences},
keywords = {streams, rivers, lakes, ponds, algae, pollution, water
quality, indicators},
pagetotal = {44},
title = {{Algal Indicators in Streams: A Review of Their Application in
Water Quality Management of Nutrient Pollution}},
type = {techreport},
year = {2017}
}
I'm not seeing the empty error in the name. Why does biber find it empty?
Rich
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Re: Jabref 5.3.1
Am 23.07.21 um 17:57 schrieb Herbert Voss: Am 23.07.21 um 17:34 schrieb Wolfgang Engelmann: Am 22.07.21 um 20:44 schrieb Herbert Voss: First I deleted the old JabRef. Then I downloaded the new deb file and with doubleclick on that file it will be installed by the install manager. After that I can use jabref as usual. Herbert I did also delete the old JabRef. I downloaded for Ubuntu/Debian Jabref_5.3-1_amd64.deb (155MB) via download.fosshub.com opened with GDebi-Paket-Installationprogramm (Standard) and clicked Paket installieren I tried jabref ./jabref After a successful instalation it should be available by the menu. With an input of "jab" the icon of jabref should be on the screen. Herbert tried again after 7 minutes (don't know how long the installation takes, there is no info on it) to no avail Herbert, did you use another source for the Debian package? Wolfgang perhaps the up to date java is an issue? Which one is needed? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 23.07.21 um 17:34 schrieb Wolfgang Engelmann: Am 22.07.21 um 20:44 schrieb Herbert Voss: First I deleted the old JabRef. Then I downloaded the new deb file and with doubleclick on that file it will be installed by the install manager. After that I can use jabref as usual. Herbert I did also delete the old JabRef. I downloaded for Ubuntu/Debian Jabref_5.3-1_amd64.deb (155MB) via download.fosshub.com opened with GDebi-Paket-Installationprogramm (Standard) and clicked Paket installieren I tried jabref ./jabref After a successful instalation it should be available by the menu. With an input of "jab" the icon of jabref should be on the screen. Herbert tried again after 7 minutes (don't know how long the installation takes, there is no info on it) to no avail Herbert, did you use another source for the Debian package? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 22.07.21 um 20:44 schrieb Herbert Voss: First I deleted the old JabRef. Then I downloaded the new deb file and with doubleclick on that file it will be installed by the install manager. After that I can use jabref as usual. Herbert I did also delete the old JabRef. I downloaded for Ubuntu/Debian Jabref_5.3-1_amd64.deb (155MB) via download.fosshub.com opened with GDebi-Paket-Installationprogramm (Standard) and clicked Paket installieren I tried jabref ./jabref tried again after 7 minutes (don't know how long the installation takes, there is no info on it) to no avail Herbert, did you use another source for the Debian package? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Get a Mac :-)-O el On 22/07/2021 21:31, Paul A. Rubin wrote: On 7/22/21 2:25 PM, Wolfgang Engelmann wrote: Am 22.07.21 um 20:12 schrieb Wolfgang Engelmann: Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: [...] -- To email me replace 'nospam' with 'el' -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
On 7/22/21 2:25 PM, Wolfgang Engelmann wrote: Am 22.07.21 um 20:12 schrieb Wolfgang Engelmann: Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) Strange: ~/Downloads/JabRef/bin$ ./JabRef Error opening "/home/wolfgang/Downloads/JabRef/lib/app/JabRef.cfg" file: No such file or directory ?? I am on Debian 11 Could the existing older JabRef be the cause? Wolfgang The JabRef contains two folders, bin and lib in bin is JabRef in lib is a folder runtime which contains lib, conf, bin, legal as folders where is JabRef.cfg ? > find -iname 'JabRef.cfg' ./lib/app/JabRef.cfg why is it not found? Wolfgang Strange indeed. I do not encounter that error on my system (Linux Mint, which is Ubuntu-based and pretty compatible with Debian), with the extracted program in exactly the same folder (~/Downloads). I have JabRef 3.8.2 installed, and it does not interfere with launching the portable version. You might try shifting the terminal to the ~/Downloads/JabRef folder and running "bin/JabRef", but I suspect the same error will occur. A nonprinting control character embedded in the path might cause the file not found error, but it is very hard to see how one might get into the path. You could also try copying the JabRef folder to /tmp and repeat the experiment there. If running ./JabRef in /tmp/JabRef/bin works, a stray character in the path becomes more plausible. -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 22.07.21 um 20:25 schrieb Wolfgang Engelmann: Am 22.07.21 um 20:12 schrieb Wolfgang Engelmann: Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) First I deleted the old JabRef. Then I downloaded the new deb file and with doubleclick on that file it will be installed by the install manager. After that I can use jabref as usual. Herbert Strange: ~/Downloads/JabRef/bin$ ./JabRef Error opening "/home/wolfgang/Downloads/JabRef/lib/app/JabRef.cfg" file: No such file or directory ?? I am on Debian 11 Could the existing older JabRef be the cause? Wolfgang The JabRef contains two folders, bin and lib in bin is JabRef in lib is a folder runtime which contains lib, conf, bin, legal as folders where is JabRef.cfg ? > find -iname 'JabRef.cfg' ./lib/app/JabRef.cfg why is it not found? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 22.07.21 um 20:12 schrieb Wolfgang Engelmann: Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) Strange: ~/Downloads/JabRef/bin$ ./JabRef Error opening "/home/wolfgang/Downloads/JabRef/lib/app/JabRef.cfg" file: No such file or directory ?? I am on Debian 11 Could the existing older JabRef be the cause? Wolfgang The JabRef contains two folders, bin and lib in bin is JabRef in lib is a folder runtime which contains lib, conf, bin, legal as folders where is JabRef.cfg ? > find -iname 'JabRef.cfg' ./lib/app/JabRef.cfg why is it not found? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) Strange: ~/Downloads/JabRef/bin$ ./JabRef Error opening "/home/wolfgang/Downloads/JabRef/lib/app/JabRef.cfg" file: No such file or directory ?? I am on Debian 11 Could the existing older JabRef be the cause? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
Am 22.07.21 um 17:32 schrieb Paul A. Rubin: On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) To run it, open a terminal and run the command "/bin/JabRef" (where is the path to the extracted JabRef folder), or just open the terminal in the bin folder and run "./JabRef". I got a lot of error messages in the terminal when I tried it (Linux Mint), but it opened and appeared to work okay. Thanks, Paul for your detailed advice. Will do so tomorrow. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: Jabref 5.3.1
On 7/22/21 9:31 AM, Wolfgang Engelmann wrote: There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang Download the archive file and extract it, which will create a folder named JabRef which in turn contains bin and lib folders. Put that folder wherever you want it. (Since this is the portable version, I suspect you might want it on a thumb drive.) To run it, open a terminal and run the command "/bin/JabRef" (where is the path to the extracted JabRef folder), or just open the terminal in the bin folder and run "./JabRef". I got a lot of error messages in the terminal when I tried it (Linux Mint), but it opened and appeared to work okay. -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Jabref 5.3.1
There is a new Jabref (5.3.1) available under https://www.fosshub.com/JabRef.html There is a download for Ubuntu+Debian and a Linux portable. I wanted to try the latter, but don't know how to run it. Could somebody advice me? Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
SOLVED: Re: Jabref linked identifiers DOI/URL open Thunderbird instead of Firefox ESR
Am 24.09.20 um 10:11 schrieb Wolfgang Engelmann: This is a bit off topic, but since some of the people in the list are using Jabref as a reference manager for Lyx, I might get help. If I click in Jabref on the linked identifiers, the DOI and/or URL opens, however clicking on it tries to open my thunderbird (Mail) instead of my Firefox. I must have done some setting since it used to work before, but I don't know what. I could not find a clue in the Jabref help. I am using Debian and Jabref 5.1 Wolfgang The reason was, that my firefox was not set to be the standard browser. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Jabref linked identifiers DOI/URL open Thunderbird instead of Firefox ESR
This is a bit off topic, but since some of the people in the list are using Jabref as a reference manager for Lyx, I might get help. If I click in Jabref on the linked identifiers, the DOI and/or URL opens, however clicking on it tries to open my thunderbird (Mail) instead of my Firefox. I must have done some setting since it used to work before, but I don't know what. I could not find a clue in the Jabref help. I am using Debian and Jabref 5.1 Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
SOLVED > Re: jabref 5 on debian
Am 06.01.20 um 14:35 schrieb Rich Shepard: On Mon, 6 Jan 2020, Wolfgang Engelmann wrote: I downloaded Jabref_5.0-1_amd64.deb from https://builds.jabref.org/master/ to my Download folder (Debian bullseye/sid). How do I get now jabref to work? It says, it is distributed with bundled Java runtime Environment > no need for java installation. Wolfgang, JabRef has many unresolved issues. Some versions required not only specific Java versions but would work only with Oracle's JDK and not openJDK. I had extensive e-mail exchanges with one of the lead developers about these issues and he told me that he, too, was frustrated by their (the devs) inability to resolve them. I dropped Jabef for kbibtex (which imported my jabrefdb.bib (which is still its name) and Riki helped me past the initial hurdles of getting it to work. While I used JabRef for years I could no longer waste time getting it to work instead of using it when I needed to find appropriate references and insert them in documents I was writing. I encourage you to explore alternatives and spend your time elsewhere rather than futzing with JabRef. Such a change will help you have a happy new year. :-) Regards, Rich Thanks, Rich, but I could install JabRef 5 via the Debian Discover Installer without problems. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
jabref 5 on debian
I downloaded Jabref_5.0-1_amd64.deb from https://builds.jabref.org/master/ to my Download folder (Debian bullseye/sid). How do I get now jabref to work? It says, it is distributed with bundled Java runtime Environment > no need for java installation. Wolfgang -- lyx-users mailing list lyx-users@lists.lyx.org http://lists.lyx.org/mailman/listinfo/lyx-users
Re: e journal references in Jabref
On 17.07.19 15:48, Baris Erkus wrote: On 17-Jul-19 4:46 PM, Wolfgang Engelmann wrote: I use jabref for LyX, biblatex. I have a larger number of e-journals as references. How can I change the entry type for all of them at once and what exactly is the entry type? Electronic? And how do I cite pages such as R322-R324 or III-V? This was all found by a quality check in Jabref, and perhaps it can be done there as a bulck? Also, how do I shift the contents of all Journal to Journaltitle, which is recommended for biblatex? Sorry for the off-topic, but I thought there are others in this group who can answer some of it. Wolfgang Have your tried to edit your bib files with a text editor and make necessary changes through find and replace? No yet. But this would not help me for the entry type question and the Rxxx-Ryyy. The last question is apparently superfluous, since biblatex uses journal as journaltitle, if that one is empty. Wolfgang
Re: e journal references in Jabref
On 17-Jul-19 4:46 PM, Wolfgang Engelmann wrote: > I use jabref for LyX, biblatex. I have a larger number of e-journals > as references. How can I change the entry type for all of them at once > and what exactly is the entry type? Electronic? And how do I cite > pages such as R322-R324 or III-V? This was all found by a quality > check in Jabref, and perhaps it can be done there as a bulck? Also, > how do I shift the contents of all Journal to Journaltitle, which is > recommended for biblatex? > > Sorry for the off-topic, but I thought there are others in this group > who can answer some of it. > > Wolfgang > Have your tried to edit your bib files with a text editor and make necessary changes through find and replace? -- ↓↓ Please bottom-post. Start your reply here:
e journal references in Jabref
I use jabref for LyX, biblatex. I have a larger number of e-journals as references. How can I change the entry type for all of them at once and what exactly is the entry type? Electronic? And how do I cite pages such as R322-R324 or III-V? This was all found by a quality check in Jabref, and perhaps it can be done there as a bulck? Also, how do I shift the contents of all Journal to Journaltitle, which is recommended for biblatex? Sorry for the off-topic, but I thought there are others in this group who can answer some of it. Wolfgang
Re: Jabref question
Wolfgang, This rather looks like a JabRef issue. Why not post it at http://discourse.jabref.org/ ? Axel Am Freitag, 21. Juni 2019, 15:23:00 CEST schrieb Wolfgang Engelmann: > I am using Jabref as a reference manager for my lyx documents. Lately I > get this type of output from literature searches using Medline/PubMed > > javax.xml.bind.JAXBElement@3a508a29 > > instead of the name of the organism. Does somebody know how th get the > actual names? > > Wolfgang
Jabref question
I am using Jabref as a reference manager for my lyx documents. Lately I get this type of output from literature searches using Medline/PubMed javax.xml.bind.JAXBElement@3a508a29 instead of the name of the organism. Does somebody know how th get the actual names? Wolfgang
entry for EJournals in Jabref
Slightly off topic: Jabref complains about an enty like this one:
@Article{Okabe2014,
.
journal = {PLoS One},
year = {2014},
volume = {9},
pages = {e109693},
.
What has to be used for the entry type instead of @Article{..
?
I am using biblatex/biber. I went through the JabRef help but did not
find the relevant hint.
Wolfgang
Re: Biber Biblatex Lyx Jabref > solved
On 04.04.19 15:10, Wolfgang Engelmann wrote:
On 04.04.19 15:03, Axel Dessecker wrote:
Am Donnerstag, 4. April 2019, 14:41:08 CEST schrieb Wolfgang Engelmann:
On 04.04.19 12:44, Jürgen Spitzmüller wrote:
Am Do., 4. Apr. 2019 um 10:27 Uhr schrieb Wolfgang Engelmann
mailto:engelm...@uni-tuebingen.de>>:
On 03.04.19 16:30, Jürgen Spitzmüller wrote:
> As with BibTeX, the encoding should ideally match the encoding
of he
> document. If it differs, you can add bibencoding=utf8
to Document >
> Settings > Bibliography > Citation Style > Options
Thanks, Jürgen. Could you or somebody else kindly try
this one, to
see
whether the Umlaute are ok?
@Article{Buenning1935,
author = {Bünning, E.},
title = {Zur {K}enntnis der erblichen {T}agesperiodizität
bei
den
{P}rimärblättern von \emph{{P}haseolus multiflorus}},
journal = {Jb. wiss. Bot.},
year = {1935},
volume = {81},
pages = {411--418},
}
We need a real minimal example file (lyx file and bib) in order to
help you.
Jürgen
In preparing a minimal example I created a new minimal lyx file and a
new bib file with just one entrance (the one above) and, voila, the
problem with the Umlaute was gone. If I use the old bib file (with many
literature references) this one item does not show the Umlaute,
although
only this item is required.
Conclusion: The problem is with the (jabref) bib file and is not a lyx
question.
But I am not sure how to proceed. If I copy my references from the old
bib file in the new one, the umlaute problem comes back, even with the
one which were correct before (I had copy/pasted them separately in the
new bib file). Perhaps someone of the Jabref users might have an idea?
Thanks for all the help
Wolfgang
Are you sure about the correct formatting of your older entries
containing
umlauts? Have you recoded the .bib file to UTF-8?
Axel
Yes, I did.
Just found out, that apparently the new Jabref 4.3.1 needs
Java-8-openjdk, not Java-9-openjdk, or alternatively openjfx.
Will try, and thanks
Wolfgang
installing openjdk-8-jdk and reinstalling jabref 2.10 solved my problem.
I appreciated the help I received.
Wolfgang
Re: Biber Biblatex Lyx Jabref
On 04.04.19 15:03, Axel Dessecker wrote:
Am Donnerstag, 4. April 2019, 14:41:08 CEST schrieb Wolfgang Engelmann:
On 04.04.19 12:44, Jürgen Spitzmüller wrote:
Am Do., 4. Apr. 2019 um 10:27 Uhr schrieb Wolfgang Engelmann
mailto:engelm...@uni-tuebingen.de>>:
On 03.04.19 16:30, Jürgen Spitzmüller wrote:
> As with BibTeX, the encoding should ideally match the encoding
of he
> document. If it differs, you can add bibencoding=utf8 to Document >
> Settings > Bibliography > Citation Style > Options
Thanks, Jürgen. Could you or somebody else kindly try this one, to
see
whether the Umlaute are ok?
@Article{Buenning1935,
author = {Bünning, E.},
title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei
den
{P}rimärblättern von \emph{{P}haseolus multiflorus}},
journal = {Jb. wiss. Bot.},
year= {1935},
volume = {81},
pages = {411--418},
}
We need a real minimal example file (lyx file and bib) in order to
help you.
Jürgen
In preparing a minimal example I created a new minimal lyx file and a
new bib file with just one entrance (the one above) and, voila, the
problem with the Umlaute was gone. If I use the old bib file (with many
literature references) this one item does not show the Umlaute, although
only this item is required.
Conclusion: The problem is with the (jabref) bib file and is not a lyx
question.
But I am not sure how to proceed. If I copy my references from the old
bib file in the new one, the umlaute problem comes back, even with the
one which were correct before (I had copy/pasted them separately in the
new bib file). Perhaps someone of the Jabref users might have an idea?
Thanks for all the help
Wolfgang
Are you sure about the correct formatting of your older entries containing
umlauts? Have you recoded the .bib file to UTF-8?
Axel
Yes, I did.
Just found out, that apparently the new Jabref 4.3.1 needs
Java-8-openjdk, not Java-9-openjdk, or alternatively openjfx.
Will try, and thanks
Wolfgang
Re: Biber Biblatex Lyx Jabref
Am Donnerstag, 4. April 2019, 14:41:08 CEST schrieb Wolfgang Engelmann:
> On 04.04.19 12:44, Jürgen Spitzmüller wrote:
> > Am Do., 4. Apr. 2019 um 10:27 Uhr schrieb Wolfgang Engelmann
> >
> > mailto:engelm...@uni-tuebingen.de>>:
> > On 03.04.19 16:30, Jürgen Spitzmüller wrote:
> > > As with BibTeX, the encoding should ideally match the encoding
> >
> > of he
> >
> > > document. If it differs, you can add bibencoding=utf8 to Document >
> > > Settings > Bibliography > Citation Style > Options
> >
> > Thanks, Jürgen. Could you or somebody else kindly try this one, to
> > see
> > whether the Umlaute are ok?
> >
> >
> > @Article{Buenning1935,
> >author = {Bünning, E.},
> >title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei
> > den
> > {P}rimärblättern von \emph{{P}haseolus multiflorus}},
> >journal = {Jb. wiss. Bot.},
> >year= {1935},
> >volume = {81},
> >pages = {411--418},
> > }
> >
> > We need a real minimal example file (lyx file and bib) in order to
> > help you.
> >
> > Jürgen
>
> In preparing a minimal example I created a new minimal lyx file and a
> new bib file with just one entrance (the one above) and, voila, the
> problem with the Umlaute was gone. If I use the old bib file (with many
> literature references) this one item does not show the Umlaute, although
> only this item is required.
>
> Conclusion: The problem is with the (jabref) bib file and is not a lyx
> question.
>
> But I am not sure how to proceed. If I copy my references from the old
> bib file in the new one, the umlaute problem comes back, even with the
> one which were correct before (I had copy/pasted them separately in the
> new bib file). Perhaps someone of the Jabref users might have an idea?
>
> Thanks for all the help
>
> Wolfgang
Are you sure about the correct formatting of your older entries containing
umlauts? Have you recoded the .bib file to UTF-8?
Axel
signature.asc
Description: This is a digitally signed message part.
Re: Biber Biblatex Lyx Jabref
On 04.04.19 12:44, Jürgen Spitzmüller wrote:
Am Do., 4. Apr. 2019 um 10:27 Uhr schrieb Wolfgang Engelmann
mailto:engelm...@uni-tuebingen.de>>:
On 03.04.19 16:30, Jürgen Spitzmüller wrote:
> As with BibTeX, the encoding should ideally match the encoding
of he
> document. If it differs, you can add bibencoding=utf8 to Document >
> Settings > Bibliography > Citation Style > Options
Thanks, Jürgen. Could you or somebody else kindly try this one, to
see
whether the Umlaute are ok?
@Article{Buenning1935,
author = {Bünning, E.},
title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei
den
{P}rimärblättern von \emph{{P}haseolus multiflorus}},
journal = {Jb. wiss. Bot.},
year = {1935},
volume = {81},
pages = {411--418},
}
We need a real minimal example file (lyx file and bib) in order to
help you.
Jürgen
In preparing a minimal example I created a new minimal lyx file and a
new bib file with just one entrance (the one above) and, voila, the
problem with the Umlaute was gone. If I use the old bib file (with many
literature references) this one item does not show the Umlaute, although
only this item is required.
Conclusion: The problem is with the (jabref) bib file and is not a lyx
question.
But I am not sure how to proceed. If I copy my references from the old
bib file in the new one, the umlaute problem comes back, even with the
one which were correct before (I had copy/pasted them separately in the
new bib file). Perhaps someone of the Jabref users might have an idea?
Thanks for all the help
Wolfgang
Re: Biber Biblatex Lyx Jabref
Am Do., 4. Apr. 2019 um 10:27 Uhr schrieb Wolfgang Engelmann <
engelm...@uni-tuebingen.de>:
>
> On 03.04.19 16:30, Jürgen Spitzmüller wrote:
> > As with BibTeX, the encoding should ideally match the encoding of he
> > document. If it differs, you can add bibencoding=utf8 to Document >
> > Settings > Bibliography > Citation Style > Options
>
> Thanks, Jürgen. Could you or somebody else kindly try this one, to see
> whether the Umlaute are ok?
>
>
> @Article{Buenning1935,
>author = {Bünning, E.},
>title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei den
> {P}rimärblättern von \emph{{P}haseolus multiflorus}},
>journal = {Jb. wiss. Bot.},
>year= {1935},
>volume = {81},
>pages = {411--418},
> }
>
We need a real minimal example file (lyx file and bib) in order to help you.
Jürgen
Re: Biber Biblatex Lyx Jabref
On 04.04.19 10:27, Wolfgang Engelmann wrote:
On 03.04.19 16:30, Jürgen Spitzmüller wrote:
As with BibTeX, the encoding should ideally match the encoding of he
document. If it differs, you can add bibencoding=utf8 to Document >
Settings > Bibliography > Citation Style > Options
Thanks, Jürgen. Could you or somebody else kindly try this one, to see
whether the Umlaute are ok?
@Article{Buenning1935,
author = {Bünning, E.},
title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei den
{P}rimärblättern von \emph{{P}haseolus multiflorus}},
journal = {Jb. wiss. Bot.},
year = {1935},
volume = {81},
pages = {411--418},
}
I do not get them even after using your proposal (Bookstyle Komascript
English)
Wolfgang
ps: I also did this before in the bib file
https://tex.stackexchange.com/questions/81716/umlauts-in-a-jabref-managed-bibtex-file-and-file-encoding
#
That's right. If your bib-File is rather old, check in Jabref
(Preferences->General->Encoding) that you use UTF8 and convert the file
via |iconv -f ISO-8859-1 -t UTF-8 jabref_old.bib > jabref_new.bib|. It
seems (tex.stackexchange.com/questions/97252/…
<http://tex.stackexchange.com/questions/97252/in-which-order-should-i-load-inputenc-and-fontenc>)
that |\usepackage[utf8]{inputenc}| is still needed, too. – mpy
<https://tex.stackexchange.com/users/25449/mpy> Mar 2 '13 at 15:05
<https://tex.stackexchange.com/questions/81716/umlauts-in-a-jabref-managed-bibtex-file-and-file-encoding#comment217914_100569>
#
Thanks for the answer. I'll try this next week and let you know whether
it works fine. @mpy Thank you too for your comment. I never came across
|iconv| so far. – halirutan
<https://tex.stackexchange.com/users/18927/halirutan> Mar 2 '13 at 19:59
<https://tex.stackexchange.com/questions/81716/umlauts-in-a-jabref-managed-bibtex-file-and-file-encoding#comment217995_100569>
#
3
But bibtex does not handle some utf8 characters (umlauts) from bib
files. It will look fine in JabRef but will give errors when compiling.
Switching to biblatex/biber solves the issue. – remus
<https://tex.stackexchange.com/users/28053/remus> Apr 24 '13 at 19:41
<https://tex.stackexchange.com/questions/81716/umlauts-in-a-jabref-managed-bibtex-file-and-file-encoding#comment242896_100569>
however, I tried this one in the preamplewhich was refused by Lyx since
utf8 was already defined:
|\usepackage[utf8]{inputenc}
|
|do I need to include inputenc and where would I do that?|
|Wolfgang
|
Re: Biber Biblatex Lyx Jabref
On 03.04.19 16:30, Jürgen Spitzmüller wrote:
As with BibTeX, the encoding should ideally match the encoding of he
document. If it differs, you can add bibencoding=utf8 to Document >
Settings > Bibliography > Citation Style > Options
Thanks, Jürgen. Could you or somebody else kindly try this one, to see
whether the Umlaute are ok?
@Article{Buenning1935,
author = {Bünning, E.},
title = {Zur {K}enntnis der erblichen {T}agesperiodizität bei den
{P}rimärblättern von \emph{{P}haseolus multiflorus}},
journal = {Jb. wiss. Bot.},
year = {1935},
volume = {81},
pages = {411--418},
}
I do not get them even after using your proposal (Bookstyle Komascript
English)
Wolfgang
Re: Biber Biblatex Lyx Jabref
Am Mi., 3. Apr. 2019 um 16:20 Uhr schrieb Wolfgang Engelmann < engelm...@uni-tuebingen.de>: > Is standard coding UTF8 ok? > As with BibTeX, the encoding should ideally match the encoding of he document. If it differs, you can add bibencoding=utf8 to Document > Settings > Bibliography > Citation Style > Options Jürgen
Re: Biber Biblatex Lyx Jabref
On 03.04.19 15:53, Axel Dessecker wrote: Wolfgang, Am Mittwoch, 3. April 2019, 15:47:58 CEST schrieb Jürgen Spitzmüller: Am Mi., 3. Apr. 2019 um 15:36 Uhr schrieb Wolfgang Engelmann < engelm...@uni-tuebingen.de>: I read this and made the settings, but can't find under tools>preferences>output>latex the setting for biber. It should be listed in Bibliography Generation > Processor (given biber is correctly installed). But you shouldn't need to set it explicitly. Biber is used if "Automatic" is set. What about jabref? special settings for biblatex? I don't use jabref. Jürgen You can select a biblatex mode in JabRef. Axel Thanks, Axel, yes. I had selected it already under >options>preferences>standard bibliography mode Is standard coding UTF8 ok? Wolfgang
Re: Biber Biblatex Lyx Jabref
On 03.04.19 15:47, Jürgen Spitzmüller wrote: Am Mi., 3. Apr. 2019 um 15:36 Uhr schrieb Wolfgang Engelmann mailto:engelm...@uni-tuebingen.de>>: I read this and made the settings, but can't find under tools>preferences>output>latex the setting for biber. It should be listed in Bibliography Generation > Processor (given biber is correctly installed). But you shouldn't need to set it explicitly. Biber is used if "Automatic" is set. I did not have biber installed. Will try now. Thanks a lot, Jürgen Wolfgang What about jabref? special settings for biblatex? I don't use jabref. Jürgen
Re: Biber Biblatex Lyx Jabref
Wolfgang, Am Mittwoch, 3. April 2019, 15:47:58 CEST schrieb Jürgen Spitzmüller: > Am Mi., 3. Apr. 2019 um 15:36 Uhr schrieb Wolfgang Engelmann < > > engelm...@uni-tuebingen.de>: > > I read this and made the settings, but can't find under > > tools>preferences>output>latex the setting for biber. > > It should be listed in Bibliography Generation > Processor (given biber is > correctly installed). > But you shouldn't need to set it explicitly. Biber is used if "Automatic" > is set. > > > What about jabref? special settings for biblatex? > > I don't use jabref. > > Jürgen You can select a biblatex mode in JabRef. Axel
Re: Biber Biblatex Lyx Jabref
Am Mi., 3. Apr. 2019 um 15:36 Uhr schrieb Wolfgang Engelmann < engelm...@uni-tuebingen.de>: > I read this and made the settings, but can't find under > tools>preferences>output>latex the setting for biber. > It should be listed in Bibliography Generation > Processor (given biber is correctly installed). But you shouldn't need to set it explicitly. Biber is used if "Automatic" is set. > What about jabref? special settings for biblatex? > I don't use jabref. Jürgen
Re: Biber Biblatex Lyx Jabref
On 03.04.19 15:15, Jürgen Spitzmüller wrote: Am Mi., 3. Apr. 2019 um 15:07 Uhr schrieb Wolfgang Engelmann mailto:engelm...@uni-tuebingen.de>>: Where can I get infos re Biber Biblatex Jabref Lyx? UserGuide, 6.5.2.2. I read this and made the settings, but can't find under tools>preferences>output>latex the setting for biber. What about jabref? special settings for biblatex? Wolfgang and https://wiki.lyx.org/BibTeX/Biblatex Jürgen
Re: Biber Biblatex Lyx Jabref
Am Mi., 3. Apr. 2019 um 15:07 Uhr schrieb Wolfgang Engelmann < engelm...@uni-tuebingen.de>: > Where can I get infos re Biber Biblatex Jabref Lyx? > UserGuide, 6.5.2.2. and https://wiki.lyx.org/BibTeX/Biblatex Jürgen
Biber Biblatex Lyx Jabref
Where can I get infos re Biber Biblatex Jabref Lyx? This one seems to be a bit old: https://texwelt.de/wissen/fragen/2768/biblatex-und-biber-mit-lyx Where does biber come into play? In https://texwelt.de/wissen/fragen/2768/biblatex-und-biber-mit-lyx the settings are mainly done in the preamble. Is this recommended? Could somebody supply an example preamble for it? What has to be done on the Jabref side? Thanks, Wolfgang
re: Jabref
On Fri, 25 Jan 2019, F M Salter wrote: I use linux with the KDE environment. In KDE, one can add extra buttons to windows' frames. One of these is "keep below" other windows. If this is set, the jabref entry window appears on top. Frank et al., With Xfce4 the window manager can be set to obtain focus when the cursor enters its frame or require a left click to change the focus to the window in which the cursor is located. Carpe weekend, Rich
re: Jabref
Wolfgang Enlelmann asked about window hiding with Jabref. I think the only universal solution for all OS's is to use the button to hide the Jabref main window, which reveals the entry window below.. I use linux with the KDE environment. In KDE, one can add extra buttons to windows' frames. One of these is "keep below" other windows. If this is set, the jabref entry window appears on top. Regards Frank Salter
Re: jabref
Those questions are far beyond my knowledge level. We need one of the gurus
to step in. Sorry.
On Wed, 23 Jan 2019 at 10:57, Wolfgang Engelmann
wrote:
> On 22.01.19 20:37, John Kane wrote:
>
> Strange, I tossed your reference into an existing .bib file and the Umlaute
> came through just fine when I exported to text and to html. I don't use
> jabref a lot so I may not be duplicating your actions> I simply went File >
> Export
> On Tuesday, January 22, 2019, 2:06:49 p.m. EST, Wolfgang Engelmann
> wrote:
>
>
> Sorry, off topic,
>
> but I have two questions re Jabref
>
> 1. If I want to save or select a file, the menu opens BEHIND the Jabref.
> How can I get it in the forground?
>
> 2. I can't get Jabref (it's 4.3.1) to export Umlaute (neither in UTF8
> nor in Din1505 nor in html.
>
> Example:
> @Article{Buenning1932c,
> author = {Bünning, E.},
> title = {Über die {E}rblichkeit der {T}agesperiodizität bei den
> \emph{{P}haseolus}-{B}lättern},
> journal = {Jb. wiss. Botanik},
> year= {1932},
> volume = {77},
> pages = {283-320},
> }
>
> Note, that I talk just about the Jabref export itself, not via lyx.
>
> I could not find help in the net, it just says it would work. But not
> for me.
>
> Wolfgang
>
> Thanks, John. I have, by the way, tried also to use biblatex in Jabref.
> Same problem. I also tried German as the language- no cure. Could it be due
> to a general language setting on my PC? And where would I check for it? I
> am using
>
> Downloads$ cat /etc/issue Linux Mint 18.3 Sylvia \n \l and the KDE version
>
> This is the keybord input configuration:
>
> Current configuration for the input method:
>
> * Active configuration: missing (normally missing)
>
> * Normal automatic choice: none (normally ibus or fcitx or uim)
>
> * Override rule:
> zh_CN,fcitx:zh_TW,fcitx:zh_HK,fcitx:zh_SG,fcitx:ja_JP,fcitx:ko_KR,fcitx:vi_VN,fcitx
>
> * Current override choice: (de_DE)
>
> * Current automatic choice: none
>
> * Number of valid choices: 1 (normally 1)
>
> The override rule is defined in /etc/default/im-config.
>
> The configuration set by im-config is activated by re-starting X.
>
> Explicit selection is not required to enable the automatic configuration
> if the active one is default/auto/cjkv/missing.
>
> Wolfgang
>
--
John Kane
Kingston ON Canada
Re: jabref
On 23.01.19 11:30, Wolfgang Engelmann wrote:
On 22.01.19 20:37, John Kane wrote:
Strange, I tossed your reference into an existing .bib file and the
Umlaute came through just fine when I exported to text and to html.
I don't use jabref a lot so I may not be duplicating your actions> I
simply went File > Export
On Tuesday, January 22, 2019, 2:06:49 p.m. EST, Wolfgang Engelmann
wrote:
Sorry, off topic,
but I have two questions re Jabref
1. If I want to save or select a file, the menu opens BEHIND the Jabref.
How can I get it in the forground?
2. I can't get Jabref (it's 4.3.1) to export Umlaute (neither in UTF8
nor in Din1505 nor in html.
Example:
@Article{Buenning1932c,
author = {Bünning, E.},
title = {Über die {E}rblichkeit der {T}agesperiodizität bei den
\emph{{P}haseolus}-{B}lättern},
journal = {Jb. wiss. Botanik},
year = {1932},
volume = {77},
pages = {283-320},
}
Note, that I talk just about the Jabref export itself, not via lyx.
I could not find help in the net, it just says it would work. But not
for me.
Wolfgang
Thanks, John. I have, by the way, tried also to use biblatex in
Jabref. Same problem. I also tried German as the language- no cure.
Could it be due to a general language setting on my PC? And where
would I check for it? I am using
Downloads$ cat /etc/issue Linux Mint 18.3 Sylvia \n \l and the KDE version
This is the keybord input configuration:
Current configuration for the input method:
* Active configuration: missing (normally missing)
* Normal automatic choice: none (normally ibus or fcitx or uim)
* Override rule:
zh_CN,fcitx:zh_TW,fcitx:zh_HK,fcitx:zh_SG,fcitx:ja_JP,fcitx:ko_KR,fcitx:vi_VN,fcitx
* Current override choice: (de_DE)
* Current automatic choice: none
* Number of valid choices: 1 (normally 1)
The override rule is defined in /etc/default/im-config.
The configuration set by im-config is activated by re-starting X.
Explicit selection is not required to enable the automatic
configuration if the active one is default/auto/cjkv/missing.
Wolfgang
I had started the new Jabref (4.3.1) from the folder in which I keep it
by using
~/JABREF-4.3.1$ java -jar JabRef-4.3.1.jar
I noticed that synaptic has an old jabref, which I now removed
completely via synaptic. Now the export of Umlaute works. No idea, what
went wrong before.
MY FIRST QUESTION REMAINS:
1. If I want to save or select a file, the menu opens BEHIND the Jabref.
How can I get it in the forground?
Thanks for help,
Wolfgang
Re: jabref
On 22.01.19 20:37, John Kane wrote:
Strange, I tossed your reference into an existing .bib file and the
Umlaute came through just fine when I exported to text and to html. I
don't use jabref a lot so I may not be duplicating your actions> I
simply went File > Export
On Tuesday, January 22, 2019, 2:06:49 p.m. EST, Wolfgang Engelmann
wrote:
Sorry, off topic,
but I have two questions re Jabref
1. If I want to save or select a file, the menu opens BEHIND the Jabref.
How can I get it in the forground?
2. I can't get Jabref (it's 4.3.1) to export Umlaute (neither in UTF8
nor in Din1505 nor in html.
Example:
@Article{Buenning1932c,
author = {Bünning, E.},
title = {Über die {E}rblichkeit der {T}agesperiodizität bei den
\emph{{P}haseolus}-{B}lättern},
journal = {Jb. wiss. Botanik},
year = {1932},
volume = {77},
pages = {283-320},
}
Note, that I talk just about the Jabref export itself, not via lyx.
I could not find help in the net, it just says it would work. But not
for me.
Wolfgang
Thanks, John. I have, by the way, tried also to use biblatex in Jabref.
Same problem. I also tried German as the language- no cure. Could it be
due to a general language setting on my PC? And where would I check for
it? I am using
Downloads$ cat /etc/issue Linux Mint 18.3 Sylvia \n \l and the KDE version
This is the keybord input configuration:
Current configuration for the input method:
* Active configuration: missing (normally missing)
* Normal automatic choice: none (normally ibus or fcitx or uim)
* Override rule:
zh_CN,fcitx:zh_TW,fcitx:zh_HK,fcitx:zh_SG,fcitx:ja_JP,fcitx:ko_KR,fcitx:vi_VN,fcitx
* Current override choice: (de_DE)
* Current automatic choice: none
* Number of valid choices: 1 (normally 1)
The override rule is defined in /etc/default/im-config.
The configuration set by im-config is activated by re-starting X.
Explicit selection is not required to enable the automatic configuration
if the active one is default/auto/cjkv/missing.
Wolfgang
Re: jabref
Strange, I tossed your reference into an existing .bib file and the Umlaute
came through just fine when I exported to text and to html. I don't use jabref
a lot so I may not be duplicating your actions> I simply went File > Export
On Tuesday, January 22, 2019, 2:06:49 p.m. EST, Wolfgang Engelmann
wrote:
Sorry, off topic,
but I have two questions re Jabref
1. If I want to save or select a file, the menu opens BEHIND the Jabref.
How can I get it in the forground?
2. I can't get Jabref (it's 4.3.1) to export Umlaute (neither in UTF8
nor in Din1505 nor in html.
Example:
@Article{Buenning1932c,
author = {Bünning, E.},
title = {Über die {E}rblichkeit der {T}agesperiodizität bei den
\emph{{P}haseolus}-{B}lättern},
journal = {Jb. wiss. Botanik},
year = {1932},
volume = {77},
pages = {283-320},
}
Note, that I talk just about the Jabref export itself, not via lyx.
I could not find help in the net, it just says it would work. But not
for me.
Wolfgang
jabref
Sorry, off topic,
but I have two questions re Jabref
1. If I want to save or select a file, the menu opens BEHIND the Jabref.
How can I get it in the forground?
2. I can't get Jabref (it's 4.3.1) to export Umlaute (neither in UTF8
nor in Din1505 nor in html.
Example:
@Article{Buenning1932c,
author = {Bünning, E.},
title = {Über die {E}rblichkeit der {T}agesperiodizität bei den
\emph{{P}haseolus}-{B}lättern},
journal = {Jb. wiss. Botanik},
year = {1932},
volume = {77},
pages = {283-320},
}
Note, that I talk just about the Jabref export itself, not via lyx.
I could not find help in the net, it just says it would work. But not
for me.
Wolfgang
Re: Jabref Journal abbreviations
I think, what I did wrong was not to select all the references with ctr a and use afterward the abbreviation step. What I haven't solved yet is this: if I select in JabRef e.g. options, it opens *behind* the JabRef main window. How do I get it to open in such a way that it is visible right away without having to move the main window aside? Wolfgang On 04.09.2018 09:00, Wolfgang Engelmann wrote: I am trying to use the built in journal abbreviation list of JabRef-4.3.1 With Options>manage Journal abbreviations I select JabRef built in list but it does not seem to work for the references. If I check again Options>manage Journal abbreviations the list is not selected any more. I looked in the Internet but could not find a remedy. Does somebody know how to do it? By the way, if I select in JabRef e.g. options, it opens *behind* the JabRef main window. How do I get it to open in such a way that it is visible right away without having to move the main window aside? Sorry for the OT question, but the JabRef FAQs are difficult to search through. BTW, I am using Linux Mint Wolfgang
Jabref Journal abbreviations
I am trying to use the built in journal abbreviation list of JabRef-4.3.1 With Options>manage Journal abbreviations I select JabRef built in list but it does not seem to work for the references. If I check again Options>manage Journal abbreviations the list is not selected any more. I looked in the Internet but could not find a remedy. Does somebody know how to do it? By the way, if I select in JabRef e.g. options, it opens *behind* the JabRef main window. How do I get it to open in such a way that it is visible right away without having to move the main window aside? Sorry for the OT question, but the JabRef FAQs are difficult to search through. BTW, I am using Linux Mint Wolfgang
Re: Jabref under linux-mint
On Thu, 30 Aug 2018, Paul A. Rubin wrote: In any case, I downloaded the 4.3.1 jar file just now and ran it successfully with exactly the same command line you used. I opened the terminal in the folder where the jar file was located. Is it possible that you are in a different directory and just need to supply the path to the jar file? This is one reason to use shell scripts. For example, my jabref.sh* (chmod a+x) contains: #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.8.2.jar cd This lets me open it from any virtual desktop (Xfce4 panel). HTH, Rich
Re: Jabref under linux-mint > semi - solved
On 30.08.2018 17:26, Paul A. Rubin wrote: On 08/29/2018 07:13 AM, Wolfgang Engelmann wrote: Slightly OT: Is there somebody who uses Jabref as a reference manager under Linux-Mint successfully and could give me a hint how he/she succeeded? I am always getting java -jar Jabref-4.3.1.jar Error: Unable to access jarfile Jabref-4.3.1.jar I tried under Linux-mint 18.3 Sylvia openjdk version "1.8.0_181", and Java SE Runtime environment of Oracle, and have set the Path in /etc/profile to export JAVA_HOME=/home/wolfgang/java/jre-10.0.2 export PATH=$JAVA_HOME/bin:$PATH Cheers, Wolfgang Wolfgang, I use JabRef on the same setup (Mint 18.3, Oracle runtime) with no problems. I installed JabRef from the repositories (using Software Manager), which means I've got version 2.10. I don't know why the repos are so far behind. In any case, I downloaded the 4.3.1 jar file just now and ran it successfully with exactly the same command line you used. I opened the terminal in the folder where the jar file was located. Is it possible that you are in a different directory and just need to supply the path to the jar file? Paul Thanks, Paul. I have my JabRef-4.3.1.jar file in my home under /JABREF If I mouseclick on it, it opens alright. If I open it in a terminal, I am told: wolfgang@wolfgang-Mr-Whisper-Ultra-SSD-II:/mnt/sdb/we/JABREF-4.3.1$ java -jar JabRef-4.3.1.jar 17:58:43.101 [AWT-EventQueue-0] ERROR org.jabref.logic.l10n.Localization - Messages are not initialized before accessing Your current Java version (%0) is not supported. Please install version %1 or higher. So I can work with it, but I do not understand the terminal message. Perhaps somebody had an idea, what's going wrong here. Wolfgang
Re: Jabref under linux-mint
On 08/29/2018 07:13 AM, Wolfgang Engelmann wrote: Slightly OT: Is there somebody who uses Jabref as a reference manager under Linux-Mint successfully and could give me a hint how he/she succeeded? I am always getting java -jar Jabref-4.3.1.jar Error: Unable to access jarfile Jabref-4.3.1.jar I tried under Linux-mint 18.3 Sylvia openjdk version "1.8.0_181", and Java SE Runtime environment of Oracle, and have set the Path in /etc/profile to export JAVA_HOME=/home/wolfgang/java/jre-10.0.2 export PATH=$JAVA_HOME/bin:$PATH Cheers, Wolfgang Wolfgang, I use JabRef on the same setup (Mint 18.3, Oracle runtime) with no problems. I installed JabRef from the repositories (using Software Manager), which means I've got version 2.10. I don't know why the repos are so far behind. In any case, I downloaded the 4.3.1 jar file just now and ran it successfully with exactly the same command line you used. I opened the terminal in the folder where the jar file was located. Is it possible that you are in a different directory and just need to supply the path to the jar file? Paul
Re: Jabref under linux-mint > solved
On 29.08.2018 13:13, Wolfgang Engelmann wrote: Slightly OT: Is there somebody who uses Jabref as a reference manager under Linux-Mint successfully and could give me a hint how he/she succeeded? I am always getting java -jar Jabref-4.3.1.jar Error: Unable to access jarfile Jabref-4.3.1.jar I tried under Linux-mint 18.3 Sylvia openjdk version "1.8.0_181", and Java SE Runtime environment of Oracle, and have set the Path in /etc/profile to export JAVA_HOME=/home/wolfgang/java/jre-10.0.2 export PATH=$JAVA_HOME/bin:$PATH Cheers, Wolfgang Sorry for the noice, I used instead of JabRef-4.3.1.jar > Jabref-4.3.1.jar r instead of R! I wonder how often this happens. Wolfgang
Jabref under linux-mint
Slightly OT: Is there somebody who uses Jabref as a reference manager under Linux-Mint successfully and could give me a hint how he/she succeeded? I am always getting java -jar Jabref-4.3.1.jar Error: Unable to access jarfile Jabref-4.3.1.jar I tried under Linux-mint 18.3 Sylvia openjdk version "1.8.0_181", and Java SE Runtime environment of Oracle, and have set the Path in /etc/profile to export JAVA_HOME=/home/wolfgang/java/jre-10.0.2 export PATH=$JAVA_HOME/bin:$PATH Cheers, Wolfgang
Re: Jabref-3.7 > solved
I would like to thank Paul A. Rubin and Richard Shepard for their suggestions and help re Jabref-3.7 installation (which I use as a reference manager under Lyx). The problem was, that my Jabref 2.10 did recently not give any results under WEB search for references, e.g. by using medline (I am using debian jessie) It turned out that the solution was quite simple: Since Jabref 3.8 needs Java 8, I installed this first by using synaptic. In /search /I asked for java8 (not java 8 -this gives you more offers) and got 1- oracle-java8-installer 2- oracle-java8-set-default 3- oracle-java8-iunlimited-jce-policy out of which I selected /1 and 2/, but NOT yet 3, for installing. /3/ was installed AFTER 1 and 2 installation was finished Since jabref of debian offers only version 2.10 as the newest version, I downloaded it from https://sourceforge.net/projects/jabref/ as JabRef-3.7.jar (35MiB) and put it as a starter on my desktop. Now I can start it by clicking at the icon and I am able to use the medline data bank again. Wolfgang
Re: Jabref-3.7
On 11/29/2016 12:07 PM, Wolfgang Engelmann wrote: On 29.11.2016 17:10, Paul A. Rubin wrote: On 11/29/2016 10:41 AM, Wolfgang Engelmann wrote: On 29.11.2016 15:49, Wolfgang Engelmann wrote: On 29.11.2016 15:05, Rich Shepard wrote: On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... Thanks, Rich, but Jabref-3.7 is the trouble. I have it installed already and used it all the time, but it is not supporting medline any more, which I used to use and need for fetching references from the web. Wolfgang I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich I guess the problem I encounter has to do with these first lines from the script Paul pointed out. I checked the /etc/apt/sources.list echo "deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee /etc/apt/sources.list.d/webupd8team-java.list echo "deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee -a /etc/apt/sources.list.d/webupd8team-java.list but there is listed also sources.list.d (see NOTE below) which contains the files lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main NOTE: The function of the |/etc/apt/sources.list.d| directory is as follows: Using the directory you can easily add new repositories w/o the need to edit the central |/etc/apt/sources.list| file. I.e. you can just put a file with a unique name and the same format as |/etc/apt/sources.list| into this folder and it is used by apt. In order to remove this source again you can just remove that specific file w/o the need for handling side effects, parsing or mangling with |/etc/apt/sources.list|. It's mainly for scripts or other packages to put their repositories there automatically - if you manually add repositories you could add them to |/etc/apt/sources.list| manually. My QUESTION: should the script work with the infos in the two files in sources.list.d? Wolfgang Wolfgang, The webupd8team-java.list looks okay provided that you are either running Ubuntu Xenial (or a distribution built on that) or Debian Stretch (which is apparently the Debian version upon which Xenial is based). If, as the LyX list suggests, you're running Debian Jessie, then I think you need a webupd8team archive based on one of the following Ubuntu versions: Trusty; Utopic; Vivid; or Wily. Paul I am running Debian Jessie. So I should have used lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and not webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main ?? Wolfgang I'm not sure about the LyX PPA. If you got a version of LyX that works, I guess I would leave it alone. I would have thought you would need to specify an Ubuntu version, such as deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ trusty main or one of the other Ubuntu versions derived from Jessie. For the webupd8team-java.list entry, I would change "xenial" to "wily" in both lines and see if that helps. If any of the webupd8-java packages installed before you got the abort, you probably should uninstall them through Synaptic or apt, then (after fixing the .list file) update and try installing the two packages from the webupd8team PPA. Paul
Re: Jabref-3.7
On 29.11.2016 17:10, Paul A. Rubin wrote: On 11/29/2016 10:41 AM, Wolfgang Engelmann wrote: On 29.11.2016 15:49, Wolfgang Engelmann wrote: On 29.11.2016 15:05, Rich Shepard wrote: On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... Thanks, Rich, but Jabref-3.7 is the trouble. I have it installed already and used it all the time, but it is not supporting medline any more, which I used to use and need for fetching references from the web. Wolfgang I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich I guess the problem I encounter has to do with these first lines from the script Paul pointed out. I checked the /etc/apt/sources.list echo "deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee /etc/apt/sources.list.d/webupd8team-java.list echo "deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee -a /etc/apt/sources.list.d/webupd8team-java.list but there is listed also sources.list.d (see NOTE below) which contains the files lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main NOTE: The function of the |/etc/apt/sources.list.d| directory is as follows: Using the directory you can easily add new repositories w/o the need to edit the central |/etc/apt/sources.list| file. I.e. you can just put a file with a unique name and the same format as |/etc/apt/sources.list| into this folder and it is used by apt. In order to remove this source again you can just remove that specific file w/o the need for handling side effects, parsing or mangling with |/etc/apt/sources.list|. It's mainly for scripts or other packages to put their repositories there automatically - if you manually add repositories you could add them to |/etc/apt/sources.list| manually. My QUESTION: should the script work with the infos in the two files in sources.list.d? Wolfgang Wolfgang, The webupd8team-java.list looks okay provided that you are either running Ubuntu Xenial (or a distribution built on that) or Debian Stretch (which is apparently the Debian version upon which Xenial is based). If, as the LyX list suggests, you're running Debian Jessie, then I think you need a webupd8team archive based on one of the following Ubuntu versions: Trusty; Utopic; Vivid; or Wily. Paul I am running Debian Jessie. So I should have used lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and not webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main ?? Wolfgang
Re: Jabref-3.7
On 29.11.2016 16:51, Paul A. Rubin wrote: On 11/29/2016 10:06 AM, Wolfgang Engelmann wrote: On 29.11.2016 14:57, Paul A. Rubin wrote: On 11/29/2016 04:34 AM, Wolfgang Engelmann wrote: Slightly off topic: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help. || A long discussion is in the following, but it is beyond me: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814901 Wolfgang || Wolfgang, You might want to look at https://launchpad.net/~webupd8team/+archive/ubuntu/java <https://launchpad.net/%7Ewebupd8team/+archive/ubuntu/java>. If you add their PPA to Synaptic and install their package (which is an updater, not Java itself), it will install Java 8. Moreover, as new versions of Java appear, their package will show up in your usual updates and, when you update it, will automatically install the latest Java. It also takes care of various configuration nonsense, such as setting the latest Java as the preferred version, that otherwise can be a PITA. Cheers, Paul Thanks, Paul, for the pointer. I have run the script but at the end I was asked whether I would like to continue: [J/n] y I tried j (ja in German), J, y and just return > in all cases I get an abortion: Es müssen 39,7 kB an Archiven heruntergeladen werden. Nach dieser Operation werden 180 kB Plattenplatz zusätzlich benutzt. Möchten Sie fortfahren? [J/n] y Abbruch. root@wolfgang-Mr-Whisper-Ultra-SSD-II:~# any idea what I could do to get it to continue? Wolfgang Wolfgang, First, what operating system do you have (and what architecture -- i86, amd64, ...)? Second, which script did you run? Paul Its Debian Jessie and amd64 Wolfgang
Re: Jabref-3.7
On 11/29/2016 10:41 AM, Wolfgang Engelmann wrote: On 29.11.2016 15:49, Wolfgang Engelmann wrote: On 29.11.2016 15:05, Rich Shepard wrote: On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... Thanks, Rich, but Jabref-3.7 is the trouble. I have it installed already and used it all the time, but it is not supporting medline any more, which I used to use and need for fetching references from the web. Wolfgang I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich I guess the problem I encounter has to do with these first lines from the script Paul pointed out. I checked the /etc/apt/sources.list echo "deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee /etc/apt/sources.list.d/webupd8team-java.list echo "deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee -a /etc/apt/sources.list.d/webupd8team-java.list but there is listed also sources.list.d (see NOTE below) which contains the files lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main NOTE: The function of the |/etc/apt/sources.list.d| directory is as follows: Using the directory you can easily add new repositories w/o the need to edit the central |/etc/apt/sources.list| file. I.e. you can just put a file with a unique name and the same format as |/etc/apt/sources.list| into this folder and it is used by apt. In order to remove this source again you can just remove that specific file w/o the need for handling side effects, parsing or mangling with |/etc/apt/sources.list|. It's mainly for scripts or other packages to put their repositories there automatically - if you manually add repositories you could add them to |/etc/apt/sources.list| manually. My QUESTION: should the script work with the infos in the two files in sources.list.d? Wolfgang Wolfgang, The webupd8team-java.list looks okay provided that you are either running Ubuntu Xenial (or a distribution built on that) or Debian Stretch (which is apparently the Debian version upon which Xenial is based). If, as the LyX list suggests, you're running Debian Jessie, then I think you need a webupd8team archive based on one of the following Ubuntu versions: Trusty; Utopic; Vivid; or Wily. Paul
Re: Jabref-3.7
On 11/29/2016 10:06 AM, Wolfgang Engelmann wrote: On 29.11.2016 14:57, Paul A. Rubin wrote: On 11/29/2016 04:34 AM, Wolfgang Engelmann wrote: Slightly off topic: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help. || A long discussion is in the following, but it is beyond me: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814901 Wolfgang || Wolfgang, You might want to look at https://launchpad.net/~webupd8team/+archive/ubuntu/java <https://launchpad.net/%7Ewebupd8team/+archive/ubuntu/java>. If you add their PPA to Synaptic and install their package (which is an updater, not Java itself), it will install Java 8. Moreover, as new versions of Java appear, their package will show up in your usual updates and, when you update it, will automatically install the latest Java. It also takes care of various configuration nonsense, such as setting the latest Java as the preferred version, that otherwise can be a PITA. Cheers, Paul Thanks, Paul, for the pointer. I have run the script but at the end I was asked whether I would like to continue: [J/n] y I tried j (ja in German), J, y and just return > in all cases I get an abortion: Es müssen 39,7 kB an Archiven heruntergeladen werden. Nach dieser Operation werden 180 kB Plattenplatz zusätzlich benutzt. Möchten Sie fortfahren? [J/n] y Abbruch. root@wolfgang-Mr-Whisper-Ultra-SSD-II:~# any idea what I could do to get it to continue? Wolfgang Wolfgang, First, what operating system do you have (and what architecture -- i86, amd64, ...)? Second, which script did you run? Paul
Re: Jabref-3.7
On 29.11.2016 15:49, Wolfgang Engelmann wrote: On 29.11.2016 15:05, Rich Shepard wrote: On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... Thanks, Rich, but Jabref-3.7 is the trouble. I have it installed already and used it all the time, but it is not supporting medline any more, which I used to use and need for fetching references from the web. Wolfgang I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich I guess the problem I encounter has to do with these first lines from the script Paul pointed out. I checked the /etc/apt/sources.list echo "deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee /etc/apt/sources.list.d/webupd8team-java.list echo "deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main" | tee -a /etc/apt/sources.list.d/webupd8team-java.list but there is listed also sources.list.d (see NOTE below) which contains the files lyx-devel-release-jessie.list with: deb http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main # deb-src http://ppa.launchpad.net/lyx-devel/release/ubuntu/ jessie main and webupd8team-java.list with deb http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main deb-src http://ppa.launchpad.net/webupd8team/java/ubuntu xenial main NOTE: The function of the |/etc/apt/sources.list.d| directory is as follows: Using the directory you can easily add new repositories w/o the need to edit the central |/etc/apt/sources.list| file. I.e. you can just put a file with a unique name and the same format as |/etc/apt/sources.list| into this folder and it is used by apt. In order to remove this source again you can just remove that specific file w/o the need for handling side effects, parsing or mangling with |/etc/apt/sources.list|. It's mainly for scripts or other packages to put their repositories there automatically - if you manually add repositories you could add them to |/etc/apt/sources.list| manually. My QUESTION: should the script work with the infos in the two files in sources.list.d? Wolfgang
Re: Jabref-3.7
On 29.11.2016 14:57, Paul A. Rubin wrote: On 11/29/2016 04:34 AM, Wolfgang Engelmann wrote: Slightly off topic: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help. || A long discussion is in the following, but it is beyond me: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814901 Wolfgang || Wolfgang, You might want to look at https://launchpad.net/~webupd8team/+archive/ubuntu/java <https://launchpad.net/%7Ewebupd8team/+archive/ubuntu/java>. If you add their PPA to Synaptic and install their package (which is an updater, not Java itself), it will install Java 8. Moreover, as new versions of Java appear, their package will show up in your usual updates and, when you update it, will automatically install the latest Java. It also takes care of various configuration nonsense, such as setting the latest Java as the preferred version, that otherwise can be a PITA. Cheers, Paul Thanks, Paul, for the pointer. I have run the script but at the end I was asked whether I would like to continue: [J/n] y I tried j (ja in German), J, y and just return > in all cases I get an abortion: Es müssen 39,7 kB an Archiven heruntergeladen werden. Nach dieser Operation werden 180 kB Plattenplatz zusätzlich benutzt. Möchten Sie fortfahren? [J/n] y Abbruch. root@wolfgang-Mr-Whisper-Ultra-SSD-II:~# any idea what I could do to get it to continue? Wolfgang
Re: Jabref-3.7
On 29.11.2016 15:05, Rich Shepard wrote: On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... Thanks, Rich, but Jabref-3.7 is the trouble. I have it installed already and used it all the time, but it is not supporting medline any more, which I used to use and need for fetching references from the web. Wolfgang I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich
Re: Jabref-3.7
On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: Usually, when you only care about running Java programs on your browser or computer you will only install *JRE*. It's all you need. On the other hand, if you are planning to do some Java programming, you will also need *JDK*. Wolfgang, There may be tools and applications you use that need to be locally built so installing the JDK prevents a build failing because part of it is in Java and you can't compile that portion. A rare event, but the JDK covers you. Rich
Re: Jabref-3.7
On Tue, 29 Nov 2016, Wolfgang Engelmann wrote: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. Wolfgang, I, too, use JabRef with LyX; it's great! I'm using JabRef-3.7 and ... I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I > unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? I'm using openjdk-8u91_b14 on Slackware. I recommend it (or Oracle's Java JDK) over the limited JRE version as it gives you more capabilities and storage space is generally not an issue. How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help|| I don't know Debian or its derivatives, so I suggest that you go to the download Web page <https://www.fosshub.com/JabRef.html>, select the second option, "Download JabRef Platform independent runnable JAR," and deposit the download in /opt/. You'll have /opt/JabRef-3.7.jar. To run it, I have a simple shell script (called jabref.sh): #!/bin/bash cd /opt/JabRef/ java -jar JabRef-3.7.jar cd No muss, no bother. HTH, Rich
Re: Jabref-3.7
On 11/29/2016 04:34 AM, Wolfgang Engelmann wrote: Slightly off topic: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help. || A long discussion is in the following, but it is beyond me: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814901 Wolfgang || Wolfgang, You might want to look at https://launchpad.net/~webupd8team/+archive/ubuntu/java <https://launchpad.net/%7Ewebupd8team/+archive/ubuntu/java>. If you add their PPA to Synaptic and install their package (which is an updater, not Java itself), it will install Java 8. Moreover, as new versions of Java appear, their package will show up in your usual updates and, when you update it, will automatically install the latest Java. It also takes care of various configuration nonsense, such as setting the latest Java as the preferred version, that otherwise can be a PITA. Cheers, Paul
Re: Jabref-3.7
On 29.11.2016 10:34, Wolfgang Engelmann wrote: Slightly off topic: I am using Jabref for my lyx work (debian). The version I use (2.10) does not support the medline any more. I apparently need Java 8 for it -JRE or JDK are offered, which should go in /opt. Which one is recommendable? None is given in synaptic. And how do I unpack the JRE or JDK into /opt? Do I extract it first on my home/download and copy the folder as root into it? How do I install jabref-3.7? Unpacking it gives me a lot of folders/files, but I can't find a help. || A long discussion is in the following, but it is beyond me: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814901 Wolfgang To answer my first question: http://stackoverflow.com/questions/1906445/what-is-the-difference-between-jdk-and-jre *JRE*: Java Runtime Environment. It is basically the Java Virtual Machine where your Java programs run on. It also includes browser plugins for Applet execution. *JDK*: It's the full featured Software Development Kit for Java, including *JRE*, and the compilers and tools (like JavaDoc, and Java Debugger) to create and compile programs. Usually, when you only care about running Java programs on your browser or computer you will only install *JRE*. It's all you need. On the other hand, if you are planning to do some Java programming, you will also need *JDK*.
