No citations appearing on website

  • cl332

    (@cl332)


    7 years, 10 months ago

    Hi,

    I’m trying to use your plug-in for a lab website but I am having trouble getting citations to appear. The only thing that appears is a list that begins and ends at 1 as well as the Search PubMed link.

    Also, every now and then I also get this compilation error on the website:

    Warning: simplexml_load_file(): http%3A%2F%2Feutils.ncbi.nlm.nih.gov%2Fentrez%2Feutils%2Fesearch.fcgi%3Fdb%3Dpubmed%26term%3DCalhoun%2BPS%26retmax%3D10:1: parser error : Document is empty in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Warning: simplexml_load_file(): in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Warning: simplexml_load_file(): ^ in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Warning: simplexml_load_file(): http%3A%2F%2Feutils.ncbi.nlm.nih.gov%2Fentrez%2Feutils%2Fesearch.fcgi%3Fdb%3Dpubmed%26term%3DCalhoun%2BPS%26retmax%3D10:1: parser error : Start tag expected, ‘<‘ not found in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Warning: simplexml_load_file(): in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Warning: simplexml_load_file(): ^ in /home/beckha6/public_html/wordpress/wp-content/plugins/wp-pubmed-reflist/class.wpPubMedRefList.php on line 191

    Thanks a lot and I really look forward to using this plug-in.

    https://wordpress.org/plugins/wp-pubmed-reflist/

Viewing 10 replies - 1 through 10 (of 10 total)
  • Plugin Author jimhu

    (@jimhu)

    7 years, 10 months ago

    First, did you try saving a format and reloading? I’ve been meaning to fix that, but have been swamped. There are some other help threads here about how to do that.

    wrt the simplexml error, I suspect it’s a separate issue that I should look into.

    Thread Starter cl332

    (@cl332)

    7 years, 10 months ago

    I am currently using the NIH style and have tried the solution in this thread: https://wordpress.org/support/topic/new-install-empty-citations?replies=6, but there are still no citations on the webpage.

    Plugin Author jimhu

    (@jimhu)

    7 years, 10 months ago

    Maybe a query problem? Can you post the query you are using and how you’re using the shortcode?

    then I can test on my test site.

    Thread Starter cl332

    (@cl332)

    7 years, 10 months ago

    The query I’m testing out is very basic. It’s simply “Beckham JC”, and the shortcode is [pmid-refs key=beckham limit=10]. I just copy and paste the shortcode into a page on the website.

    Is there another way that I should be using the shortcode?

    Plugin Author jimhu

    (@jimhu)

    7 years, 10 months ago

    hmm… I just tested it on my laptop test site.

    Under the tools menu I have an entry where the key is “beckham” and the query is “”Beckham JC” (without the quote marks). I put the shorttag in a test post and I get:

    1. Gentes, EL, Schry, AR, Hicks, TA, Clancy, CP, Collie, CF, Kirby, AC et al.. Prevalence and correlates of cannabis use in an outpatient VA posttraumatic stress disorder clinic. Psychol Addict Behav. 2016;30 (3):415-21. doi: 10.1037/adb0000154. PubMed PMID:27214172 .
    2. Van Voorhees, EE, Dennis, PA, Neal, LC, Hicks, TA, Calhoun, PS, Beckham, JC et al.. Posttraumatic Stress Disorder, Hostile Cognitions, and Aggression in Iraq/Afghanistan Era Veterans. Psychiatry. 2016;79 (1):70-84. doi: 10.1080/00332747.2015.1123593. PubMed PMID:27187514 .
    3. Dedert, EA, Hicks, TA, Dennis, PA, Calhoun, PS, Beckham, JC. Roles of inter-individual differences and intra-individual acute elevations in early smoking lapse in people with posttraumatic stress disorder. Addict Behav. 2016;60 :171-6. doi: 10.1016/j.addbeh.2016.04.007. PubMed PMID:27155244 PubMed Central PMC4884530.
    4. Schry, AR, Beckham, JC, The Va Mid-Atlantic Mirecc Workgroup,, Calhoun, PS. Sexual revictimization among Iraq and Afghanistan war era veterans. Psychiatry Res. 2016;240 :406-11. doi: 10.1016/j.psychres.2016.04.016. PubMed PMID:27149409 .
    5. Dennis, PA, Dedert, EA, Van Voorhees, EE, Watkins, LL, Hayano, J, Calhoun, PS et al.. Examining the Crux of Autonomic Dysfunction in Posttraumatic Stress Disorder: Whether Chronic or Situational Distress Underlies Elevated Heart Rate and Attenuated Heart Rate Variability. Psychosom Med. 2016; :. doi: 10.1097/PSY.0000000000000326. PubMed PMID:27057817 .
    6. Dennis, PA, Kimbrel, NA, Dedert, EA, Beckham, JC, Dennis, MF, Calhoun, PS et al.. Supplemental nicotine preloading for smoking cessation in posttraumatic stress disorder: Results from a randomized controlled trial. Addict Behav. 2016;59 :24-9. doi: 10.1016/j.addbeh.2016.03.004. PubMed PMID:27046670 PubMed Central PMC4852372.
    7. Dennis, PA, Weinberg, JB, Calhoun, PS, Watkins, LL, Sherwood, A, Dennis, MF et al.. An investigation of vago-regulatory and health-behavior accounts for increased inflammation in posttraumatic stress disorder. J Psychosom Res. 2016;83 :33-9. doi: 10.1016/j.jpsychores.2016.02.008. PubMed PMID:27020074 PubMed Central PMC4813329.
    8. Green, KT, Dennis, PA, Neal, LC, Hobkirk, AL, Hicks, TA, Watkins, LL et al.. Exploring the relationship between posttraumatic stress disorder symptoms and momentary heart rate variability. J Psychosom Res. 2016;82 :31-4. doi: 10.1016/j.jpsychores.2016.01.003. PubMed PMID:26944396 PubMed Central PMC4779501.
    9. Calhoun, PS, Schry, AR, Dennis, PA, Wagner, HR, Kimbrel, NA, Bastian, LA et al.. The Association Between Military Sexual Trauma and Use of VA and Non-VA Health Care Services Among Female Veterans With Military Service in Iraq or Afghanistan. J Interpers Violence. 2016; :. doi: 10.1177/0886260515625909. PubMed PMID:26802046 .
    10. Kimbrel, NA, Beckham, JC. Careful operationalization and assessment are critical for advancing the study of the neurobiology of resilience. Behav Brain Sci. 2015;38 :e107. doi: 10.1017/S0140525X14001575. PubMed PMID:26786545 .

    It’s got the hyperlinks etc. So there’s nothing wrong with the query or the shortcode.

    Try making a second query and saving. Sometimes it’s dumb about the order of updates to the settings.

    Thread Starter cl332

    (@cl332)

    7 years, 10 months ago

    I just made a new key “calhoun” with the query “Calhoun PS”, and I still cannot get anything to appear. Could it perhaps be related to the compilation error that I was getting earlier?

    Plugin Author jimhu

    (@jimhu)

    7 years, 10 months ago

    Maybe. If you have access to the mySQL database, you can also look at the wp-options table and check that the two options: wp_pubmed_reflist and wp_pubmed_reflist_styles are there.

    I’m also wondering if there is something blocking access to the pubmed web services from your server. Are you on a hosting service of some kind?

    Thread Starter cl332

    (@cl332)

    7 years, 10 months ago

    So it looks like our host doesn’t allow us to use fopen for XML files, but we switched over to the curl option. However, we still don’t have anything appearing. Any thoughts on that?

    Thread Starter cl332

    (@cl332)

    7 years, 10 months ago

    Actually just got it working! For some reason one of the more recent keys that I created was not working. However, switching to curl got the plug-in to work in the end. Thanks a lot for your help!

    Plugin Author jimhu

    (@jimhu)

    7 years, 10 months ago

    Glad you got it to work. Not sure why it didn’t switch over to curl automatically. I guess my test for url fopen isn’t good enough.

Viewing 10 replies - 1 through 10 (of 10 total)
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