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[EP-tech] Generate abstract by item type
- Subject: [EP-tech] Generate abstract by item type
- From: mohdizwan8733 at uitm.edu.my (MOHD.IZWAN SALIM)
- Date: Thu, 7 Jul 2022 16:45:51 +0800
- In-reply-to: <6b77084b-3840-a374-c697-898972580a58@ecs.soton.ac.uk>
- References: <CAANJ=pgJq1puWHG7kveTdLSEDeuyvn58oxUGp2GZ-uwVxSKV=Q@mail.gmail.com> <2194c48f-ae30-b05b-4ec4-abe652f7ee82@ecs.soton.ac.uk> <EMEW3|a55d3bc5e02e83733c9ee84b4598b799y659me03drn|ecs.soton.ac.uk|2194c48f-ae30-b05b-4ec4-abe652f7ee82@ecs.soton.ac.uk> <fb77da95-c441-a9d0-da8f-e821d5e5e80d@alfa.it> <CAANJ=piVFv7cbwL=qc63xgiCVtjGzntbrhDrFSmp8ssj08tNUA@mail.gmail.com> <a68085ce-4327-2641-87a0-23421bfdfa40@alfa.it> <6b77084b-3840-a374-c697-898972580a58@ecs.soton.ac.uk> <CAANJ=pgq4OjmcLa7NhXmWg6_5HNqHKcF_mTSy-D=y+-Oyqsprw@mail.gmail.com>
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Dear David
It was another repo (internal access) only.
I use the latest geneate_abstract you gave.
Are there are 2 steps (command):
1. Generate a list of eprintid (with mysql)
2. generate_abstract those id (arrange with editor)
Or is it can be run once?
Mine got
Unknown option: ?,
Unknown option: i,
Unknown option: auto-rehash
Unknown option: disable-auto-rehash.
Unknown option: skip-auto-rehash
Unknown option: a,
Unknown option: no-auto-rehash
Unknown option: auto-vertical-output
Unknown option: b,
Unknown option: batch
Unknown option: silent.)
Unknown option: bind-address
Izwan
On Thu, Jul 7, 2022 at 2:59 PM David R Newman <drn at ecs.soton.ac.uk<mailto:drn at ecs.soton.ac.uk>> wrote:
Yuri is right, I did not include the -B, which I used when I tested this myself. Also, I forgot that you could use -N to remove the column name, (save needing the "| tail -n +2"). As you have put the MySQL command in backticks (`), this will effectively remove new lines, so there is no need to include the "GROUP_CONCAT(eprintid SEPARATOR ' ')" you can just use eprintid, so the following will do the job assuming the eprint type cartographic is correct:
./generate_abstracts digimap `mysql -u username -p repopassword eprints -N -B -e "SELECT eprintid FROM eprint WHERE type = 'cartographic' AND eprint_status = 'archive';"`
On 07/07/2022 7:43 am, Yuri via Eprints-tech wrote:
CAUTION: This e-mail originated outside the University of Southampton.
I would first run:
mysql -u username -p repopassword eprints -e "SELECT eprintid FROM eprint WHERE type = 'cartographic' AND eprint_status = 'archive';" | tail -n +2
to see if the output is ok (should return a list of pids separated by spaces. Then yes, it should be it. Beware that if the password contains some characters interpreted by bash, maybe some escaping could be necessary.
Note: you've to do it because the format of the command output is:
+----------+
| eprintid |
+----------+
| XXXX |
...
+----------+
so you will not get the list separated by a space. Is this correct, David? Here you can find some hint, but you can use a editor to get the list of eprintids to get this format:
XXXX ZZZZ WWWW
adding -N -B remove the extra characters from the output (|, headers) and you can use group_concat to get all in one line:
mysql -u username -p repopassword eprints -N -B -e "SELECT GROUP_CONCAT(eprintid SEPARATOR ' ') FROM eprint WHERE type = 'cartographic' AND eprint_status = 'archive';"
so the command should be
./generate_abstracts digimap `mysql -u username -p repopassword eprints -N -B -e "SELECT GROUP_CONCAT(eprintid SEPARATOR ' ') FROM eprint WHERE type = 'cartographic' AND eprint_status = 'archive';"`
Il 07/07/22 02:36, MOHD.IZWAN SALIM via Eprints-tech ha scritto:
Dear Yuri and David, is this the exact command that I have to run in the terminal?
./generate_abstracts digimap `mysql -u username -p repopassword eprints -e "SELECT eprintid FROM eprint WHERE type = 'cartographic' AND eprint_status = 'archive';" | tail -n +2`
digimap is my repoid
eprints is my database
Izwan
UiTM Institutional Repository
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On Wed, Jul 6, 2022 at 7:50 PM Yuri via Eprints-tech <eprints-tech at ecs.soton.ac.uk<mailto:eprints-tech at ecs.soton.ac.uk>> wrote:
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An idea could be to have a generic utils with a query parameter in json
format, so a search is run with that query and the resulting eprintids
used. For example:
bin/find_eprintids <ARCHIVEID> -query '{"type": "conference_item",
"eprint_status": "archive"}' | xargs bin/generate_abstracts <ARCHIVEID>
(dates could be expressed in iso format). The util 'find_eprintids'
would do:
foreach $key (keys %fields)
{
$searchexp->add_field( $ds->get_field( $key ), $fields($key) );
}
my $list = $searchexp->perform_search;
and then return the eprintids from the list.
This could help to combine together multiple search results in a single
file, and cat the file | xargs bin/generate_abstracts <ARCHIVEID>.
I usually use the db as below to get all the eprintids I need to process
but an "eprints" search could be useful/simpler to use.
Il 06/07/22 10:48, David R Newman via Eprints-tech ha scritto:
>
> Hi Izwan,
>
> Unfortunately, there is not currently an easy way to do this bar
> writing your own script. For the next release of EPrints I have
> expanded the epadmin scripts capabilities so all functions where you
> could only provide a single eprint ID, you can now provide multiple
> eprint IDs or even a sequence of eprint IDs (e.g. 1-10 for the first
> 10 eprint IDs). What your email has meant I have realised is that as
> generate_abstracts is a separate script, I have not introduced the
> same functionality to that. I have just been working on fixing that
> oversight and as it is a stand-alone script you should be able to
> download and use the latest version from here:
>
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>
> Although the script does not allow you to specify a type option you
> can do a little trick from the command line:
>
> bin/generate_abstracts <ARCHIVEID> `mysql -u <DBUSER> -p<DBPASSWORD>
> <DBNAME> -e "SELECT eprintid FROM eprint WHERE type =
> 'conference_item' AND eprint_status = 'archive';" | tail -n +2`
>
> What this does is queries the database for all live archive items of a
> particular eprint type (in this case conference_item) and prints out
> this list of eprint IDs. the "| tail -n +2" keeps everything from the
> 2nd line onwards (i.e. removes the first line), as this contains the
> name of the column (i.e. eprintid), which is not an eprint ID in itself.
>
> Regards
>
> David Newman
>
> On 06/07/2022 6:15 am, MOHD.IZWAN SALIM via Eprints-tech wrote:
>> *CAUTION:* This e-mail originated outside the University of Southampton.
>> Dear all, can we generate abstract pages by an option item type or
>> other metadata?
>>
>> Regards
>>
>> *Izwan*
>> UiTM Institutional Repository
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