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From: Adam S. <as...@gm...> - 2006-07-30 00:12:14
|
Hi--I'm having a bit o'trouble with search and bookmarklets pages and hoped someone could help. 1. *Search*: I can search for everything but "My library" and "All." When I search using these two types of searches, it gives me a huge page of errors that looks like a section of code from the DBI.pm file: "DBD::mysql::st execute failed: Table 'bibliotech_search.user_bookmark_details' doesn't exist [for Statement "SELECT ub.user_bookmark_id, ub.user, ub.bookmark, ub.updated, ub.citation, ub.user_is_author, ub.private, ub.private_gang, ub.private_until, ub.created, u.user_id, u.username, u.openurl_resolver, u.openurl_name, u.updated, IFNULL(GROUP_CONCAT(DISTINCT CONCAT(g.gang_id),':/:',IFNULL(g.name, '+NULL'),':/:',IFNULL(g.owner, '+NULL'),':/:',IFNULL(g.private, '+NULL') ORDER BY ug.created SEPARATOR '///'), '') AS _u_gangs_packed, b.bookmark_id, b.url, b.hash, ..." so forth and so on... Why "My library" and "All" searches don't work but the rest do is beyond me... 2. *Bookmarklets*: I created a page "bookmarklets.inc" in my /html folder. When I add the variable ${bookmarklets}, it breaks the page and displays this error: "Can't locate object method "a" via package "add" (perhaps you forgot to load "add"?) at /usr/lib/perl5/5.8.0/Bibliotech/Bookmarklets.pm line 117." I know it's reaching the Bookmarklets.pm file, but line 117 is the middle of the javascript call for the bookmarklet. When I comment the line out, it still displays the same error. 3. *Gangs*: How do you show the "edit" link next to the groups. I can show ListOfMyGangs, but I want to add the "edit" link next to the gang if I'm the owner. THANKS in advance for your help!!! --Adam |
From: Martin F. <ma...@ne...> - 2006-07-28 20:54:56
|
Hi all, Quick survey - does anyone use an obscure browser to access Connotea? You don't have to mention Firefox, Netscape, MSIE, Safari, Camino, etc. Thanks, Martin Flack |
From: cheng w. <wav...@ho...> - 2006-07-22 08:10:53
|
Hello, everybody. Thank you-all for your help. With your help, now the Apache Server in my computer has started up. But I still have 2 other questions to consult you. 1. How does connotea work? Unlike the web language such as ASP or JSP, all the files in connotea-code are perl program files, I can't find any html code in these files. so, can you tell me how does it work? For example, suppose you input 'http://www.connotea.org' in browser, which file in the server will recieve and deal with the request? which file will deal with the 'add-url' request? In another word, suppose I have installed the connotea code in my computer at '/var/www/html/bibliotech' and the web root is '/var/www/html/', how can I use it through a web browser?(use: http://127.0.0.1/bibliotech/??? to visit them?) 2. How to make it work? Unfortunately, my Apache server seems can't recognize the perl script and just show the source code. Whatever I try, it just won't execute. I don't know what's wrong. Actually, just as the first question mentioned, I don't know whether the steps I did is right. I just input 'http://127.0.0.1/bibliotech/add' in browser to visit the file '/var/www/html/bibliotech/add', and the browser return the source code of the file 'add' to me. :-(. Have you ever installed connotea in your own computer successful? if so, can you help me? I want to make it clear. I am a student and I have very limited knowledge about Apache and perl, if possile, would you please explain in a more detailed way? . Thank you very much. Sincerely yours Wavar Cheng _________________________________________________________________ 与联机的朋友进行交流,请使用 MSN Messenger: http://messenger.msn.com/cn |
From: Paul H. <pa...@se...> - 2006-07-19 21:51:55
|
Cheng, One thing that got us much closer to our somewhat successful install (we were having similar bootstrapping conflicts with our Perl modules) was a brand new installation of Apache. Then we did some fiddling with making sure that the bibliotech.conf and httpd.conf were pointing at the right Perl modules and Connotea installations. But that can come later. So, again, try a second install of Apache, and point your httpd at that new installation. Paul cheng wavar wrote: > This is the second time I post the help Email to the mail list. Thanks s lot to many people who have helped me. They point out maybe my httpd server > can't cooperated with perl 5.8.8 well. Because I have limited knowledge about Linux and perl, I just don't know how to deal with them, this time I try to use perl 5.8.5. But there is still something wrong. > > Here is the details. > > Platforms: > 1. OS platform: CentOS 4.3 > 2. Apache 2.0.52(provided by CentOS itself) > 3. perl 5.8.5(provided by CentOS itself) > 3. CPAN modules: all except the modules Apache2, Apache::Const(can not find them) and FindBin(request perl 5.8.8, and my httpd server seems can't recognize it) > 4. Database: MySQL 4.1.20(provided by CentOS itself). > 5. Config the Apache: added the codes in the guide to the file httpd.conf and changed the corresponding part. > 6. Memcached 1.1.12: have downloaded and installed > 7. Configuration: have copyed the file "config" to /etc/bibliothch.conf and > > changed the corresponding part > > When I start the httpd(Apache) service, it reported something wrong and here is the error message: > > [root@localhost log]# service httpd start > Starting httpd: [Fri Jul 14 15:01:44 2006] [error] Apache::Connection object version 0.01 does not match bootstrap parameter 1.00 at > /usr/lib/perl5/5.8.5/i386-linux-thread-multi/DynaLoader.pm line > 253.\nCompilation failed in require at > /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/compat.pm line 37.\nBEGIN failed--compilation aborted at > /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/compat.pm line 37.\nCompilation failed in require at > /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.\nBEGIN > failed--compilation aborted at > /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.\nCompilation failed in require at (eval 2) line 3.\n > [Fri Jul 14 15:01:44 2006] [error] Can't load Perl module > Bibliotech::Apache for server localhost.localdomain:0, exiting... > [FAILED] > > I've searched the file Apache/Connection.pm and find 2 files: > /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/Connection.pm(edition0.01) > > /usr/lib/perl5/site_perl/5.8.5/i386-linux-thread-multi/Apache/Connection.pm(edition1.00) > > > Would you please tell me what's wrong in my installation of connotea? Thanks a lot. > Wait for your help! > > Sicerely yours > Wavar Cheng > > _________________________________________________________________ ÓëÁª»úµÄÅóÓѽøÐн»Á÷£¬ÇëʹÓà MSN Messenger: http://messenger.msn.com/cn > > > > ------------------------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ > Connotea-code-devel mailing list > Con...@li... > https://lists.sourceforge.net/lists/listinfo/connotea-code-devel > |
From: cheng w. <wav...@ho...> - 2006-07-16 05:29:44
|
This is the second time I post the help Email to the mail list. Thanks s lot to many people who have helped me. They point out maybe my httpd server can't cooperated with perl 5.8.8 well. Because I have limited knowledge about Linux and perl, I just don't know how to deal with them, this time I try to use perl 5.8.5. But there is still something wrong. Here is the details. Platforms: 1. OS platform: CentOS 4.3 2. Apache 2.0.52(provided by CentOS itself) 3. perl 5.8.5(provided by CentOS itself) 3. CPAN modules: all except the modules Apache2, Apache::Const(can not find them) and FindBin(request perl 5.8.8, and my httpd server seems can't recognize it) 4. Database: MySQL 4.1.20(provided by CentOS itself). 5. Config the Apache: added the codes in the guide to the file httpd.conf and changed the corresponding part. 6. Memcached 1.1.12: have downloaded and installed 7. Configuration: have copyed the file "config" to /etc/bibliothch.conf and changed the corresponding part When I start the httpd(Apache) service, it reported something wrong and here is the error message: [root@localhost log]# service httpd start Starting httpd: [Fri Jul 14 15:01:44 2006] [error] Apache::Connection object version 0.01 does not match bootstrap parameter 1.00 at /usr/lib/perl5/5.8.5/i386-linux-thread-multi/DynaLoader.pm line 253.\nCompilation failed in require at /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/compat.pm line 37.\nBEGIN failed--compilation aborted at /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/compat.pm line 37.\nCompilation failed in require at /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.\nBEGIN failed--compilation aborted at /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.\nCompilation failed in require at (eval 2) line 3.\n [Fri Jul 14 15:01:44 2006] [error] Can't load Perl module Bibliotech::Apache for server localhost.localdomain:0, exiting... [FAILED] I've searched the file Apache/Connection.pm and find 2 files: /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi/Apache/Connection.pm(edition0.01) /usr/lib/perl5/site_perl/5.8.5/i386-linux-thread-multi/Apache/Connection.pm(edition1.00) Would you please tell me what's wrong in my installation of connotea? Thanks a lot. Wait for your help! Sicerely yours Wavar Cheng _________________________________________________________________ 与联机的朋友进行交流,请使用 MSN Messenger: http://messenger.msn.com/cn |
From: Hilary S. <hil...@st...> - 2006-07-13 22:13:26
|
Hi All, I'm trying to install Connotea on an OSX 10.4 server. However, in installing the perl modules, I found out that Time::HR is only supported on Solaris, Linux, and Cygwin. Any suggestions on what to do? I'm have fairly limited knowledge of Perl, so I'm a little hesitant to start modifying the CPAN modules, but as far as I can tell I have two options: 1) Modify Time::HR to support OSX 1) Modify Connotea to use another high-resolution timer such as Time::HiRes which is supported on OSX Has anyone else run into this problem? Any advice would be appreciated. Regards, Hilary |
From: Martin F. <ma...@ne...> - 2006-07-06 18:27:44
|
Hi Wavar, Can you show us the error message you're seeing from Apache? And the VirtualHost configuration block? Martin cheng wavar wrote: > I want to install this environment in my own computer, so I downloaded > the source files from connotea's webside, including: > connotea-code-1.7.1.tar.gz, www-connotea-perl-0.1.tar.gz and > tagging-tool-1.0.tar.gz. I have read the connotea code read me , and > follow it's steps to finish the installation: 1. OS platform: CentOS 4.3 > 2. Apache 2.0.52(provided by CentOS itself), perl 5.8.8 > 3. CPAN modules: all except the modules Apache2 and Apache::Const(can > not find them), I find another module Apache2::Const, but fail to > install(In the process of the installation, I was told that can not find > apxs and another .h file.) > 4. Database: MySQL 4.1.20(provided by CentOS itself). I created database > bibliotech and bibliotech_serach, configed them as the guide. > 5. Config the Apache: added the codes in the guide to the file > httpd.conf and changed the corresponding part. 6. Memcached 1.1.12: have > downloaded and installed > 7. Configuration: have copyed the file "config" to /etc/bibliothch.conf > and changed the corresponding part. > Then, I try to restart the Apache server, but failed, it can not find > some modules in the code "PerlModule Bibliotech::Apache". I use the > command "Perlswitches" to add all the possible path, but still failed. > I am not familiar with Linux and perl, so if possible, can you help me > for these questions? Thanks a lot. > 1. Are the platforms I show above suitable for the environment? (I > doubted whether the Apache server which OS provided itself is suitable > for the environment.) > 2. Are the steps I showed above right? Are the installation sequence > important? If I am wrong, would you please show me the steps to install > a connotea envirment in detail? > 3. Untile now, I don't know where should the file > www-connotea-perl-0.1.tar.gz be installed and how it works. Would you > please give me the answer? > > I am a rookie in this field, so I need your help very much. > Hope your answers as soon as possible. > > > > > sincerely yours > Wavar Cheng |
From: Chris B. <ch...@bd...> - 2006-07-06 13:41:11
|
Hi=A0 Wavar, =A0=A0=A0 You're definitely on the right track. I found that despite my attempts to modify the INC path to include Bibliotech.pm, perl would not recognize it. Instead, I had to do the following (assuming you installed to /opt/connotea-code-1.7.1): ln -s /opt/connotea-code-1.7.1/bibliotech/Bibliotech /usr/lib/perl5/5.8.8/Bibliotech ln -s /opt/connotea-code-1.7.1/bibliotech/Bibliotech.pm /usr/lib/perl5/5.8.8/Bibliotech.pm =A0=A0=A0 Other than that, I don't think there's anything wrong with your environment, although I certainly haven't tested Connotea on your specific platform. Also, you don't need to worry about www-connotea-perl-0.1.tar.gz -- everything you need is in connotea-code-1.7.1.tar.gz. HTH, Chris Bucchere | President & CEO bdg | ch...@bd... | 703 234 7910 -----Original Message----- From: con...@li... [mailto:con...@li...] On Behalf Of cheng wavar Sent: Thursday, July 06, 2006 8:17 AM To: con...@li... Subject: [Connotea-code-devel] help! How to install a connotea environment. =A0 I want to install this environment in my own computer, so I downloaded the source files from connotea's webside, including: connotea-code-1.7.1.tar.gz, www-connotea-perl-0.1.tar.gz and tagging-tool-1.0.tar.gz. I have read the connotea code read me , and follow it's steps to finish the installation:=A0=A0 1. OS platform: CentOS 4.3 2. Apache 2.0.52(provided by CentOS itself), perl 5.8.8 3. CPAN modules: all except the modules Apache2 and Apache::Const(can not find them), I find another module Apache2::Const, but fail to install(In the process of the installation, I was told that can not find apxs and another .h file.) 4. Database: MySQL 4.1.20(provided by CentOS itself). I created database bibliotech and bibliotech_serach, configed them as the guide. 5. Config the Apache: added the codes in the guide to the file httpd.conf and changed the corresponding part. 6. Memcached 1.1.12: have downloaded and installed 7. Configuration: have copyed the file "config" to /etc/bibliothch.conf and changed the corresponding part. Then, I try to restart the Apache server, but failed, it can not find some modules in the code "PerlModule Bibliotech::Apache". I use the command "Perlswitches" to add all the possible path, but still failed. =A0 I am not familiar with Linux and perl, so if possible, can you help me for these questions? Thanks a lot. 1. Are the platforms I show above suitable for the environment? (I doubted whether the Apache server which OS provided itself is suitable for the environment.) 2. Are the steps I showed above right? Are the installation sequence important? If I am wrong, would you please show me the steps to install a connotea envirment in detail? 3. Untile now, I don't know where should the file www-connotea-perl-0.1.tar.gz be installed and how it works. Would you please give me the answer? =A0 I am a rookie in this field, so I need your help very much. Hope your answers as soon as possible. sincerely yours Wavar Cheng |
From: cheng w. <wav...@ho...> - 2006-07-06 12:17:37
|
I want to install this environment in my own computer, so I downloaded the source files from connotea's webside, including: connotea-code-1.7.1.tar.gz, www-connotea-perl-0.1.tar.gz and tagging-tool-1.0.tar.gz. I have read the connotea code read me , and follow it's steps to finish the installation: 1. OS platform: CentOS 4.3 2. Apache 2.0.52(provided by CentOS itself), perl 5.8.8 3. CPAN modules: all except the modules Apache2 and Apache::Const(can not find them), I find another module Apache2::Const, but fail to install(In the process of the installation, I was told that can not find apxs and another .h file.) 4. Database: MySQL 4.1.20(provided by CentOS itself). I created database bibliotech and bibliotech_serach, configed them as the guide. 5. Config the Apache: added the codes in the guide to the file httpd.conf and changed the corresponding part. 6. Memcached 1.1.12: have downloaded and installed 7. Configuration: have copyed the file "config" to /etc/bibliothch.conf and changed the corresponding part. Then, I try to restart the Apache server, but failed, it can not find some modules in the code "PerlModule Bibliotech::Apache". I use the command "Perlswitches" to add all the possible path, but still failed. I am not familiar with Linux and perl, so if possible, can you help me for these questions? Thanks a lot. 1. Are the platforms I show above suitable for the environment? (I doubted whether the Apache server which OS provided itself is suitable for the environment.) 2. Are the steps I showed above right? Are the installation sequence important? If I am wrong, would you please show me the steps to install a connotea envirment in detail? 3. Untile now, I don't know where should the file www-connotea-perl-0.1.tar.gz be installed and how it works. Would you please give me the answer? I am a rookie in this field, so I need your help very much. Hope your answers as soon as possible. sincerely yours Wavar Cheng _________________________________________________________________ 享用世界上最大的电子邮件系统― MSN Hotmail。 http://www.hotmail.com |
From: Paul H. <pa...@se...> - 2006-06-29 18:58:28
|
I've been working on an installation of Connotea on Red Hat Enterprise Linux AS release 3 (Taroon Update 7) with all the other requirements of Connotea fulfilled--MySQL, Perl, and all the Perl modules installed. Memcached is running; I edited the bibliotech.conf file; but when I restart Apache I get this: [Thu Jun 29 13:45:51 2006] [error] Apache::Connection object version 0.01 does not match bootstrap parameter 1.00 at /usr/lib/perl5/5.8.0/i386-linux-thread-multi/DynaLoader.pm line 249.!Compilation failed in require at /usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi/Apache/compat.pm line 25.!BEGIN failed--compilation aborted at /usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi/Apache/compat.pm line 25.!Compilation failed in require at /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.!BEGIN failed--compilation aborted at /var/www/html/bibliotech/Bibliotech/Apache.pm line 14.!Compilation failed in require at (eval 1) line 3.! [Thu Jun 29 13:45:51 2006] [error] Can't load Perl module Bibliotech::Apache for server edtags.org:0, exiting...! I have no idea what this means. So I go into Bibliotech/Apache.pm, and for kicks, comment out the "use Apache::compat" and get this: [Thu Jun 29 13:43:11 2006] [error] Can't locate loadable object for module Apache::File in @INC (@INC contains: /var/www/html/bibliotech /usr/lib/perl5/5.8.0/i386-linux-thread-multi /usr/lib/perl5/5.8.0 /usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi /usr/lib/perl5/site_perl/5.8.0 /usr/lib/perl5/site_perl /usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi /usr/lib/perl5/vendor_perl/5.8.0 /usr/lib/perl5/vendor_perl /usr/lib/perl5/5.8.0/i386-linux-thread-multi /usr/lib/perl5/5.8.0 . /etc/httpd/ /etc/httpd/lib/perl) at /usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi/mod_perl.pm line 14!Compilation failed in require at /var/www/html/bibliotech/Bibliotech/Apache.pm line 16.!BEGIN failed--compilation aborted at /var/www/html/bibliotech/Bibliotech/Apache.pm line 16.!Compilation failed in require at (eval 1) line 3.! [Thu Jun 29 13:43:11 2006] [error] Can't load Perl module Bibliotech::Apache for server edtags.org:0, exiting...! Any advice as to what might be going on? Thanks! Paul |
From: Suresh K. <ss...@co...> - 2006-06-28 05:57:03
|
When I use the connotea bookmarklet on pubmed, the URL that is sent often contains extra characters with session specific information. e.g. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=Abstract&list_uids=13054692&query_hl=44&itool=pubmed_docsum I have appended a new bookmarklet that strips off the dopt= and query_hl= and itool= fields and submits: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&list_uids=13054692 Now, when the same PMID is bookmarked again, Connotea correctly recognizes it as already having been bookmarked, instead of tagging it as a new bookmark. For me, this is extremely important. I use Pubmed a lot and find Connotea to be a heaven-sent boon, but having dozens of duplicate abstracts was making life very difficult. I just learnt the necessary javascript to be able to write this. I am not comfortable with regular expressions, but if someone can help me replace the for loop in the code below with a simple regular expression, I will be grateful. For now, it works.... If there are bugs, please do let me know. Regards, Suresh javascript:u=location.href;a=false;x=window;e=x.encodeURIComponent;d=document; /*BEGIN MY INSERTION*/ if(u.indexOf("http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed")>-1){urlArray=u.split("&");newVariable=urlArray[0]+"&"+urlArray[1];for(ind=2;ind<urlArray.length;ind++){tempString=urlArray[ind];if(tempString.indexOf("list_uids")>-1){newVariable=newVariable+"&"+tempString;}}u=newVariable;} /*END MY INSERTION*/ if((s=d.selection)?t=s.createRange().text:t=x.getSelection()+'')(r=/(doi:)?\s?(10\.\d{4}\/\S+)/.exec(t))?u='http://dx.doi.org/'+r[2]:a=true;a?alert('Please highlight a full DOI, or deselect text to add this page.'):w=open('http://www.connotea.org/addpopup?continue=confirm&uri='+e(u)+'&title='+e(d.title),'add','width=660,height=600,scrollbars,resizable');void(x.setTimeout('w.focus()',200)); |
From: Robert M. <r.m...@ed...> - 2006-06-17 22:46:28
|
I've extracted the bookmarks for User:robertm into an XML file, by entering http://www.connotea.org/data/bookmarks/user/robertm in my browser address bar. Strangely, some of them have an empty <dc:title> element, while others do contain the assigned title. Yet when you look at robertm's bookmarks in Connotea, they all have a title. For all of them, the title (and other information) can be retrieved by picking up the rdf:resource attribute's value in the <rdfs:seeAlso> element. This is straightforward to do, but I am experiencing considerable unreliability doing it. I usually get the message that "The XML document must have a top level", suggesting that the XML is getting truncated. Moreover, the particular bookmark that this happens with varies from one try to the next. I guess that you might suggest that I try varying the timeout value. However (without wishing to complicate the story too much), I am not scripting anything, merely using an XSLT stylesheet with an <?xml-stylesheet?> processing instruction in the XML. I presume that there is no way to set the timeout value in this approach? It would simplify things a lot if all the information requested was returned in a single document, rather than requiring the programmer to follow a secondary link to retrieve the required information. This would solve the above problem, which is purely related to following such links and thus having to go back to the Connotea server for each bookmark. I appreciate that you might want to keep the <rdfs:seeAlso> element, in case developers have coded on the back of it, but would it also be possible to include this information in the main document as well? At the very least, it would be nice to have the bookmark's title in this document. Thanks, Robert |
From: <co...@eb...> - 2006-06-16 05:08:32
|
----- Original Message -----=20 From: "Martin Flack" <ma...@ne...> > If you type memory in the search box that is a full text search on lots= of=20 > fields, not just a tag search, so you'll get more (I also get 809). Oh, sorry about that. I guess I was too focused on the word "post"(count)= =20 and I forgot what I was actually searching (tags). Happens often to me. A= lso=20 didn't mean to double post. I wasn't registered on the first time, so I=20 thought it won't get through. - marko sepp=E4nen |
From: Martin F. <ma...@ne...> - 2006-06-16 03:14:05
|
Hi Marko, Just responding to the count discrepancy at the moment: Marko Sepp=E4nen wrote: > I tried following, but they weren't quite what I was looking for: > http://www.connotea.org/data/tags/tag/memory (gives only count details = and=20 > strangely this tells that postcount is 229, when site search tells ther= e's=20 > 809 posts) There are 229 public posts. I confirmed it in the database. mysql> select tag_id from tag where name =3D 'memory'; +--------+ | tag_id | +--------+ | 13 | +--------+ 1 row in set (0.00 sec) mysql> select count(*) from user_bookmark ub left join user_bookmark_tag=20 ubt on (ubt.user_bookmark =3D ub.user_bookmark_id) where ub.private =3D 0= =20 and ub.private_gang is null and ub.private_until is null and ubt.tag =3D = 13; +----------+ | count(*) | +----------+ | 229 | +----------+ 1 row in set (0.04 sec) There are actually 16 more that are private in some way. mysql> select count(*) from user_bookmark_tag where tag =3D 13; +--------= --+ | count(*) | +----------+ | 245 | +----------+ 1 row in set (0.00 sec) If you type memory in the search box that is a full text search on lots=20 of fields, not just a tag search, so you'll get more (I also get 809). I think you may have led me to a bug of some kind though - the page http://www.connotea.org/tag/memory?num=3D1000 ...says 202 at the bottom but there are 229 instances of "Posted by" on=20 the page as found in grep. That can't be right. I'll examine it tomorrow. Martin |
From: <co...@eb...> - 2006-06-16 01:46:58
|
Would it be possible to get: a) all the tags used in posts having certain string b) all the tags used together with certain tag (like "memory") I was thinking using these resulting tags as suggestions for keywords in = my=20 PubMedTool (http://ebounce.info/pubmedtool/) I tried following, but they weren't quite what I was looking for: - http://www.connotea.org/data/tags/tag/memory (gives only count details = and=20 strangely this tells that postcount is 229, when site search tells there'= s=20 809 posts) - http://www.connotea.org/data/tags/?q=3Dmemory (server error, too high l= oad) - http://www.connotea.org/data/tag/memory (takes too much time to load) I was looking these kind of results: - http://www.connotea.org/data/tags/uri/http://www.google.com/ -- However, I might need to rethink my keyword system anyway, as currently t= hey=20 are only single worded. Maybe I should try to integrate my website with=20 Connotea in other ways too, as it would make sense to save certain things= =20 found with my tools to somewhere. -- Marko Sepp=E4nen ebounce.info - http://ebounce.info |
From: <co...@eb...> - 2006-06-16 01:37:02
|
Would it be possible to get: a) all the tags used in posts having certain string b) all the tags used together with certain tag (like "memory") I was thinking using these resulting tags as suggestions for keywords in = my=20 PubMedTool (http://ebounce.info/pubmedtool/) I tried following, but they weren't quite what I was looking for: http://www.connotea.org/data/tags/tag/memory (gives only count details an= d=20 strangely this tells that postcount is 229, when site search tells there'= s=20 809 posts) http://www.connotea.org/data/tags/?q=3Dmemory (server error, too high loa= d) http://www.connotea.org/data/tag/memory (takes too much time to load) I was looking these kind of results: http://www.connotea.org/data/tags/uri/http://www.google.com/ -- However, I might need to rethink my keyword system anyway, as currently t= hey=20 are only single worded. Maybe I should try to integrate my website with=20 Connotea in other ways too, as it would make sense to save certain things= =20 found with my tools to somewhere. -- Marko Sepp=E4nen ebounce.info - http://ebounce.info |
From: Chris B. <ch...@bd...> - 2006-06-11 01:06:37
|
Hi Martin, Thanks for your advice -- I never would have figured that out on my own! I had to change a couple of other instances from undef to href_search_global to make ALL the links absolute, but I believe I have it working at this point. I'm now struggling with something else -- page titles (which, I have found, are one of the most important factors in SEO). It seems like *some* of the page titles are set by the method init_main in Page.pm, but not all of them. I'm now spitting out $bibliotech->command->page and I was going to write a case statement based on the value of that variable. But, from clicking around on the site, I see that $bibliotech->command->page can be set to "home," "popular," "add," "login," "addgroup," "addtagnote," "retag," "register" and probably a host of other values. However, the confusing part is that when I click on Recent Activity (http://www.mysite.com/recent), My Bookmarks (http://www.mysite.com/library), or any tag (http://www.mysite.com/tag/foo), username (http://www.mysite.com/user/scott) or date (http://www.mysite.com/date/2006-06-10), the code doesn't flow through the init_main method and the $bibliotech->command->page variable doesn't get set. I'm trying to make it easy to configure different page titles for the different parts of the site and I guess I need to know when I'm in the following areas of the site: recent, library, tag, user or date. Any thoughts on how I might be able to do this? Thanks! Chris -----Original Message----- From: Martin Flack [mailto:ma...@ne...] Sent: Friday, June 09, 2006 9:02 PM To: Chris Bucchere Cc: con...@li... Subject: Re: [Connotea-code-devel] Issue with recent tags Hi Chris, Thanks for pointing this out and well done on the detailed explanation. You're correct. The components will provide "global" href's if they are called with the "main" option set to true, but otherwise they will provide additive href's. However as you point out this is not always desirable; we only designed it to work with the site layout for connotea.org that we had contemplated at the time. The simplest fix that I can think of right now is this. Open Bibliotech/DBI.pm and search for this line: my $href_type; Change to: my $href_type = $self->options->{href_type} ? 'href_search_'.$self->options->{href_type} : undef; (That can all go on one line, it will wrap in this email.) Then in your template change: ${component:ListOfActiveTags} to: ${component:ListOfActiveTags(href_type=global)} That should do it. I reserve the right to change the option name before next release. Well heck I reserve the right to change anything. ;-) But href_search_global() and $href_type are the sort of variable names that we are currently looking to refactor. Too geeky. ;-) Cheers, Martin Chris Bucchere wrote: > I've found an interesting issue with the ListOfActiveTags component. > > > > I've added a reference to ListOfActiveTags to the default template on > one of my connotea implementations. I'm guessing it wasn't meant to be > used that way because when you click on a tag (say "foo") it takes you > to http://www.mysite.com/tag/foo but then if you click on recent tag > "bar" you end up at http://www.mysite.com/tag/foo/bar instead of > http://www.mysite.com/tag/bar. I need to "absolutize" the URL prefix > to Just http://www.mysite.com/tag so that when people click on a tag > name, it always prepends http://www.mysite.com/tag, not the current request URL. > > > > The problem is that I don't know the code well enough to figure out > what to change. > > > > Any suggestions? > > > > Thanks! > > Chris > > > > > ---------------------------------------------------------------------- > -- > > _______________________________________________ > Connotea-code-devel mailing list > Con...@li... > https://lists.sourceforge.net/lists/listinfo/connotea-code-devel |
From: Martin F. <ma...@ne...> - 2006-06-10 01:02:07
|
Hi Chris, Thanks for pointing this out and well done on the detailed explanation. You're correct. The components will provide "global" href's if they are=20 called with the "main" option set to true, but otherwise they will=20 provide additive href's. However as you point out this is not always desirable; we only designed=20 it to work with the site layout for connotea.org that we had=20 contemplated at the time. The simplest fix that I can think of right now is this. Open=20 Bibliotech/DBI.pm and search for this line: my $href_type; Change to: my $href_type =3D $self->options->{href_type} ?=20 'href_search_'.$self->options->{href_type} : undef; (That can all go on one line, it will wrap in this email.) Then in your template change: ${component:ListOfActiveTags} to: ${component:ListOfActiveTags(href_type=3Dglobal)} That should do it. I reserve the right to change the option name before=20 next release. Well heck I reserve the right to change anything. ;-) But=20 href_search_global() and $href_type are the sort of variable names that=20 we are currently looking to refactor. Too geeky. ;-) Cheers, Martin Chris Bucchere wrote: > I=92ve found an interesting issue with the ListOfActiveTags component. >=20 > =20 >=20 > I=92ve added a reference to ListOfActiveTags to the default template on= =20 > one of my connotea implementations. I=92m guessing it wasn=92t meant to= be=20 > used that way because when you click on a tag (say =93foo=94) it takes = you=20 > to http://www.mysite.com/tag/foo but then if you click on recent tag=20 > =93bar=94 you end up at http://www.mysite.com/tag/foo/bar instead of=20 > http://www.mysite.com/tag/bar. I need to =93absolutize=94 the URL prefi= x to=20 > Just http://www.mysite.com/tag so that when people click on a tag name,= =20 > it always prepends http://www.mysite.com/tag, not the current request U= RL. >=20 > =20 >=20 > The problem is that I don=92t know the code well enough to figure out w= hat=20 > to change. >=20 > =20 >=20 > Any suggestions? >=20 > =20 >=20 > Thanks! >=20 > Chris >=20 > =20 >=20 >=20 > -----------------------------------------------------------------------= - >=20 > _______________________________________________ > Connotea-code-devel mailing list > Con...@li... > https://lists.sourceforge.net/lists/listinfo/connotea-code-devel |
From: Chris B. <ch...@bd...> - 2006-06-09 01:18:12
|
I've found an interesting issue with the ListOfActiveTags component. I've added a reference to ListOfActiveTags to the default template on one of my connotea implementations. I'm guessing it wasn't meant to be used that way because when you click on a tag (say "foo") it takes you to http://www.mysite.com/tag/foo but then if you click on recent tag "bar" you end up at http://www.mysite.com/tag/foo/bar instead of http://www.mysite.com/tag/bar. I need to "absolutize" the URL prefix to Just http://www.mysite.com/tag so that when people click on a tag name, it always prepends http://www.mysite.com/tag, not the current request URL. The problem is that I don't know the code well enough to figure out what to change. Any suggestions? Thanks! Chris |
From: Chris B. <ch...@bd...> - 2006-06-02 02:16:33
|
Hi Joseph, I just installed Connotea a few weeks ago and it was very straightforward. I ran into a few problems with compatibility between various perl modules and I had to make a few tweaks to the code, but they were very minor. As for the two databases, basically you just install MySQL (if you haven't already) and then you run the scripts as outlined in the Connotea README file. I've quoted the database section here: SETUP DATABASE Two databases need to be created. See schema.sql for the database schema which needs to be created in MySQL. The first database will be created using InnoDB tables to enforce foreign keys and constraints and for table joining speed. A second database then should be created with a _search suffix using MyISAM tables that have FULLTEXT indexes which are queried when searching for words. (FULLTEXT indexes are not available for InnoDB yet.) The second schema is generated from the first by running: $ ./mkschema_search <schema.sql >schema_search.sql MySQL relication can be used to make the MyISAM database a slave of the InnoDB database, even on the same machine. This is a suggested configuration for /etc/my.cnf that will do just that: [mysqld] # local replication of bibliotech to bibliotech_search: server-id=1 log-bin=mysql-bin binlog-do-db=bibliotech replicate-same-server-id=1 replicate-rewrite-db=bibliotech->bibliotech_search replicate-do-db=bibliotech_search master-host=localhost master-user=search_repl master-password=pass # change stopwords in support of bibliotech freematch feature: #ft_stopword_file=/etc/mysql_stopwords.txt ft_min_word_len=2 ft_max_word_len=255 Change the master-password line! Also change the database names if you are not using "bibliotech". You will probably find the MySQL stopwords to be too restrictive in practice. The list can be viewed at <http://dev.mysql.com/doc/mysql/en/fulltext-stopwords.html>. We recommend that you pare down this list to a more suitable one, and use the ft_stopword_file keyword to tell MySQL to use your list instead. In any case, if you want the search feature to behave predictably, you must specify an external text file stopword list to MySQL. The search handler will query MySQL to find out the stopword list file being used, and read it as well, so it can anticipate MySQL reporting no matches for words that otherwise should match. You'll need to execute a grant statement similar to this one: GRANT REPLICATION SLAVE, REPLICATION CLIENT ON *.* TO search_repl@'localhost.localdomain' IDENTIFIED BY 'pass'; Two notes on the replication grant statement: * MySQL seems to consider "localhost.localdomain" different from "localhost" and while the shorter version normally works, for replication it seems that the longer one is needed. If you have problems, try both. * You must have the updated privilege table structure. If you have had MySQL installed since the 3.x series, your mysql.user table lacks the privilege fields mentioned above; check your docs about a script called 'mysql_fix_privilege_tables'. On many systems this will be a shell script in /usr/bin that you can run as root with a "--password=xxx" parameter (to specify the MySQL root user password, not the Unix root user password). The MySQL username used by the Perl handler must have access to both databases (username and password as in /etc/bibliotech.conf): GRANT SELECT, INSERT, UPDATE, DELETE ON bibliotech.* TO user@localhost IDENTIFIED BY 'secret'; GRANT SELECT, INSERT, UPDATE, DELETE ON bibliotech_search.* TO user@localhost IDENTIFIED BY 'secret'; If you get stuck, let me know and I'll try to help. Regards, Chris Bucchere President & CEO, bdg From: con...@li... [mailto:con...@li...] On Behalf Of Joseph Akintaju Sent: Thursday, June 01, 2006 8:10 PM To: Lund, Ben Cc: con...@li...; con...@li... Subject: Re: [Connotea-code-devel] [Connotea-discuss] Need help to install Connotea Hi Ben/Developers, I have ask my php programmer to install the necessary Perl modules from CPAN. However we are lost as to the database setup [it appears we need to install two DB]. All that is needed is for me to install the two DB and the config files i think. Do you guys know anyone that does offer this service for a fee. I would seriously like to install this code. Thanks for your sincere efforts in advance Joseph Akintaju jps...@gm... On 6/1/06, Lund, Ben <b....@na...> wrote: Hi Joseph, Your first step should be to have a look through the docs at http://www.connotea.org/code especially the setup section. If you come up against specific problems at any stage, please follow up on the connotea-code-devel list (cc'd here), where there are more likely to be people who have had similar issues. Thanks, Ben On 1/6/06 11:26, "Joseph Akintaju" <jps...@gm...> wrote: > Hi.. > > I have read through connotea Docs and i would like to install the connotea > code/program on my dedicated web server. > > I can install basic php scripts BUT i need help to install CONNOTEA CODE. Is > there anybody i can approach that can help me. I will be truly gracefully. > > please you can contact me on "jps...@gm..." **************************************************************************** **** DISCLAIMER: This e-mail is confidential and should not be used by anyone who is not the original intended recipient. If you have received this e-mail in error please inform the sender and delete it from your mailbox or any other storage mechanism. Neither Macmillan Publishers Limited nor any of its agents accept liability for any statements made which are clearly the sender's own and not expressly made on behalf of Macmillan Publishers Limited or one of its agents. Please note that neither Macmillan Publishers Limited nor any of its agents accept any responsibility for viruses that may be contained in this e-mail or its attachments and it is your responsibility to scan the e-mail and attachments (if any). No contracts may be concluded on behalf of Macmillan Publishers Limited or its agents by means of e-mail communication. Macmillan Publishers Limited Registered in England and Wales with registered number 785998 Registered Office Brunel Road, Houndmills, Basingstoke RG21 6XS **************************************************************************** **** -- Thanks Joseph http://www.jpservicez-searcharticles.com http://www.1-all-about.com http://www.jpservicez-smart-bargain-shopping.com |
From: Joseph A. <jps...@gm...> - 2006-06-02 00:09:33
|
Hi Ben/Developers, I have ask my php programmer to install the necessary Perl modules from CPAN. However we are lost as to the database setup [it appears we need to install two DB]. All that is needed is for me to install the two DB and the config files i think. Do you guys know anyone that does offer this service for a fee. I would seriously like to install this code. Thanks for your sincere efforts in advance Joseph Akintaju jps...@gm... On 6/1/06, Lund, Ben <b....@na...> wrote: > > Hi Joseph, > > Your first step should be to have a look through the docs at > > http://www.connotea.org/code > > especially the setup section. If you come up against specific problems at > any stage, please follow up on the connotea-code-devel list (cc'd here), > where there are more likely to be people who have had similar issues. > > Thanks, > Ben > > On 1/6/06 11:26, "Joseph Akintaju" <jps...@gm...> wrote: > > > Hi.. > > > > I have read through connotea Docs and i would like to install the > connotea > > code/program on my dedicated web server. > > > > I can install basic php scripts BUT i need help to install CONNOTEA > CODE. Is > > there anybody i can approach that can help me. I will be truly > gracefully. > > > > please you can contact me on "jps...@gm..." > > > ******************************************************************************** > DISCLAIMER: This e-mail is confidential and should not be used by anyone > who is > not the original intended recipient. If you have received this e-mail in > error > please inform the sender and delete it from your mailbox or any other > storage > mechanism. Neither Macmillan Publishers Limited nor any of its agents > accept > liability for any statements made which are clearly the sender's own and > not > expressly made on behalf of Macmillan Publishers Limited or one of its > agents. > Please note that neither Macmillan Publishers Limited nor any of its > agents > accept any responsibility for viruses that may be contained in this e-mail > or > its attachments and it is your responsibility to scan the e-mail and > attachments (if any). No contracts may be concluded on behalf of Macmillan > Publishers Limited or its agents by means of e-mail communication. > Macmillan > Publishers Limited Registered in England and Wales with registered number > 785998 > Registered Office Brunel Road, Houndmills, Basingstoke RG21 6XS > > ******************************************************************************** > -- Thanks Joseph http://www.jpservicez-searcharticles.com http://www.1-all-about.com http://www.jpservicez-smart-bargain-shopping.com |
From: Robert F. <xro...@go...> - 2006-06-01 21:44:16
|
my intuition would certainly speak against 404 "no items found". in fact, i added the handler for 404 responses to valid query requests after running into the problem. 0 matching results does not feel qualitatively different to 10 matching results. and i think it's the query context - thus something client side - which decides whether 0 results means there's something wrong. i also think http responses in the 4xx range indicate exactly this: something's wrong. probably worth a different post: i think there should be a way to post citation data. i.e. the body of a request adding/updating a post should not be url parameters, but an xml document like the one returned for querying posts. robert On 6/1/06, Lund, Ben <b....@na...> wrote: > Hi Robert, > > On 25/5/06 21:12, "Robert Forkel" <xro...@go...> wrote: > > hi, > > while testing my api wrapper, i ran into a problem with the webapi: > > queries for tags/posts/bookmarks return 404 if no matches have been > > found. to cater for this, the wrapper tried to parse a webapi response > > for this http status code. for some requests - e.g. for non-existing > > users like http://www.connotea.org/data/bookmarks/user/http > > - only the apache default 404 page is returned, which can't be parsed > > as webapi response. > > Hmm, thanks. That's definitely a bug. A response XML document should > definitely be returned, whatever the appropriate status code. It looks like > it only happens when there's a user in the request (see, for example, > http://www.connotea.org/data/tag/gfdgffdgfdgfdfgd for what it should look > like). > > We'll fix that. > > > so i'd propose to return 200 with a webapi > > response saying "no items found" for empty searches, or simply empty > > result xml? > > what do you think? > > Looking through the HTTP spec, the following codes are likely candidates: > > 200 OK - with an empty XML document > 204 No content - with no body at all > 400 Bad request - indicates that the tag or username in invalid > 404 Not found - indicates that the tag or user is unknown > > Looking through these, 400 seems too harsh -- the request was valid syntax, > just resulting in no items. 204 looks good, but we wouldn't be to put a > Response body, nor explain exactly why there is no content. > > I'm not sure about 200. If we included an empty XML doc as the response we > again wouldn't be able to give details on why there were no results. If we > included a response doc instead, that complicates the parsing a little, > since the client needs to check the status code and also the root XML > element before knowing what to do next. > > So I'm leaning towards sticking with 404 - given that either that tag or the > user were not found, I think it matches the intended meaning well. > > But I'm willing to be convinced -- what do you think? > > > robert > > Ta, > Ben > > > ******************************************************************************** > DISCLAIMER: This e-mail is confidential and should not be used by anyone who is > not the original intended recipient. If you have received this e-mail in error > please inform the sender and delete it from your mailbox or any other storage > mechanism. Neither Macmillan Publishers Limited nor any of its agents accept > liability for any statements made which are clearly the sender's own and not > expressly made on behalf of Macmillan Publishers Limited or one of its agents. > Please note that neither Macmillan Publishers Limited nor any of its agents > accept any responsibility for viruses that may be contained in this e-mail or > its attachments and it is your responsibility to scan the e-mail and > attachments (if any). No contracts may be concluded on behalf of Macmillan > Publishers Limited or its agents by means of e-mail communication. Macmillan > Publishers Limited Registered in England and Wales with registered number 785998 > Registered Office Brunel Road, Houndmills, Basingstoke RG21 6XS > ******************************************************************************** > |
From: Lund, B. <b....@na...> - 2006-06-01 16:58:03
|
Hi Robert, On 25/5/06 21:12, "Robert Forkel" <xro...@go...> wrote: > hi, > while testing my api wrapper, i ran into a problem with the webapi: > queries for tags/posts/bookmarks return 404 if no matches have been > found. to cater for this, the wrapper tried to parse a webapi response > for this http status code. for some requests - e.g. for non-existing > users like http://www.connotea.org/data/bookmarks/user/http > - only the apache default 404 page is returned, which can't be parsed > as webapi response. Hmm, thanks. That's definitely a bug. A response XML document should definitely be returned, whatever the appropriate status code. It looks like it only happens when there's a user in the request (see, for example, http://www.connotea.org/data/tag/gfdgffdgfdgfdfgd for what it should look like). We'll fix that. > so i'd propose to return 200 with a webapi > response saying "no items found" for empty searches, or simply empty > result xml? > what do you think? Looking through the HTTP spec, the following codes are likely candidates: 200 OK - with an empty XML document 204 No content - with no body at all 400 Bad request - indicates that the tag or username in invalid 404 Not found - indicates that the tag or user is unknown Looking through these, 400 seems too harsh -- the request was valid syntax, just resulting in no items. 204 looks good, but we wouldn't be to put a Response body, nor explain exactly why there is no content. I'm not sure about 200. If we included an empty XML doc as the response we again wouldn't be able to give details on why there were no results. If we included a response doc instead, that complicates the parsing a little, since the client needs to check the status code and also the root XML element before knowing what to do next. So I'm leaning towards sticking with 404 - given that either that tag or the user were not found, I think it matches the intended meaning well. But I'm willing to be convinced -- what do you think? > robert Ta, Ben ******************************************************************************** DISCLAIMER: This e-mail is confidential and should not be used by anyone who is not the original intended recipient. If you have received this e-mail in error please inform the sender and delete it from your mailbox or any other storage mechanism. Neither Macmillan Publishers Limited nor any of its agents accept liability for any statements made which are clearly the sender's own and not expressly made on behalf of Macmillan Publishers Limited or one of its agents. Please note that neither Macmillan Publishers Limited nor any of its agents accept any responsibility for viruses that may be contained in this e-mail or its attachments and it is your responsibility to scan the e-mail and attachments (if any). No contracts may be concluded on behalf of Macmillan Publishers Limited or its agents by means of e-mail communication. Macmillan Publishers Limited Registered in England and Wales with registered number 785998 Registered Office Brunel Road, Houndmills, Basingstoke RG21 6XS ******************************************************************************** |
From: Lund, B. <b....@na...> - 2006-06-01 16:19:45
|
Hi Joseph, Your first step should be to have a look through the docs at http://www.connotea.org/code especially the setup section. If you come up against specific problems at any stage, please follow up on the connotea-code-devel list (cc'd here), where there are more likely to be people who have had similar issues. Thanks, Ben On 1/6/06 11:26, "Joseph Akintaju" <jps...@gm...> wrote: > Hi.. > > I have read through connotea Docs and i would like to install the connotea > code/program on my dedicated web server. > > I can install basic php scripts BUT i need help to install CONNOTEA CODE. Is > there anybody i can approach that can help me. I will be truly gracefully. > > please you can contact me on "jps...@gm..." ******************************************************************************** DISCLAIMER: This e-mail is confidential and should not be used by anyone who is not the original intended recipient. If you have received this e-mail in error please inform the sender and delete it from your mailbox or any other storage mechanism. Neither Macmillan Publishers Limited nor any of its agents accept liability for any statements made which are clearly the sender's own and not expressly made on behalf of Macmillan Publishers Limited or one of its agents. Please note that neither Macmillan Publishers Limited nor any of its agents accept any responsibility for viruses that may be contained in this e-mail or its attachments and it is your responsibility to scan the e-mail and attachments (if any). No contracts may be concluded on behalf of Macmillan Publishers Limited or its agents by means of e-mail communication. Macmillan Publishers Limited Registered in England and Wales with registered number 785998 Registered Office Brunel Road, Houndmills, Basingstoke RG21 6XS ******************************************************************************** |
From: Robert F. <xro...@go...> - 2006-05-26 21:46:28
|
hi, just did some testing with the living reviews citation plug-in. the journal name - which is imported via the plug-in - is not exported as prism:publicationName element of the citation when querying a living reviews uri with the webapi. is this a bug? best regards, robert |