tag:blogger.com,1999:blog-14688252.post4039842711333564613..comments2024-02-16T10:17:12.310+01:00Comments on YOKOFAKUN: Pubmed, impact factors, sorting and FriendFeedPierre Lindenbaumhttp://www.blogger.com/profile/13765837643388003852noreply@blogger.comBlogger14125tag:blogger.com,1999:blog-14688252.post-5019091329478590292013-04-27T22:14:15.996+02:002013-04-27T22:14:15.996+02:00Hi Pierre, thanks for answering so fast. It looks ...Hi Pierre, thanks for answering so fast. It looks like I need to learn more on starting java programs in MS-DOS!<br />Alicehttps://www.blogger.com/profile/00311158809937520858noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-87992251909742725432013-04-27T16:51:02.508+02:002013-04-27T16:51:02.508+02:00Hi Alice,
that was an old post (2008)! To run a ja...Hi Alice,<br />that was an old post (2008)! To run a jar (under windows?) you need to first, open a window MS-DOS console https://en.wikipedia.org/wiki/MS-DOS and to execute a command line like 'java -jar nameoftheprogram.jar pubmed.xml' . I hope that helps.Pierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-59807527358739135532013-04-27T16:25:22.946+02:002013-04-27T16:25:22.946+02:00Hi Pierre, thank you for the program. I am asking ...Hi Pierre, thank you for the program. I am asking a very naive question: how do I run the jar program in order to sort the xml file from the pubmed results? If I double click on it, I see window popping up and then disappearing. Thanks to you and to anybody would like to answer. AliceAlicehttps://www.blogger.com/profile/00311158809937520858noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-2507010264039368472012-10-09T17:14:06.144+02:002012-10-09T17:14:06.144+02:00Your XML is not well-formed.Your XML is not well-formed.Pierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-68130807665523072242012-10-09T17:09:30.648+02:002012-10-09T17:09:30.648+02:00I tried the .jar today with the .xml output of pub...I tried the .jar today with the .xml output of pubmed... But it semes that there is some change in the xml structure. I always get the following error message.. :-(<br /><br /><i>java -jar Downloads/sortpubmed.jar ~/pubmed_result.xml > result.xml<br />[Fatal Error] pubmed_result.xml:302:2: The markup in the document following the root element must be well-formed.<br />Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-14688252.post-2166853310172691212010-08-03T07:58:10.288+02:002010-08-03T07:58:10.288+02:00Tom, this is an old code. Please show me a sample ...Tom, this is an old code. Please show me a sample of your output.Pierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-24884872538467075022010-08-03T06:04:29.692+02:002010-08-03T06:04:29.692+02:00Hi, I only recently ran across this and have Java ...Hi, I only recently ran across this and have Java 6.0 and run this under Windows 7 at a MSDOS prompt. When the results go to the result.xml file any viewer, such as Firefox, for this file displays mountains of lines of information. Nothing seems parsed down to just the title, abstracts, PMID's, etc...<br /><br />Please help.<br /><br />Thanks!Tomnoreply@blogger.comtag:blogger.com,1999:blog-14688252.post-12975801467169994092008-07-16T15:03:00.000+02:002008-07-16T15:03:00.000+02:00Hi ,I compiled this jar under java 6.0.You need Ja...Hi ,<BR/>I compiled this jar under java 6.0.<BR/>You need Java 6.0 to run this applicationPierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-53949769485383632352008-07-16T15:00:00.000+02:002008-07-16T15:00:00.000+02:00This is just what we need at our library, but unfo...This is just what we need at our library, but unfortunately I'm getting a Java exception when I try to run this jar on a Mac OS 10.4.11. The error is:<BR/><BR/>Exception in thread "main" java.lang.UnsupportedClassVersionError: Bad version number in .class file<BR/> at java.lang.ClassLoader.defineClass1(Native Method)<BR/> at java.lang.ClassLoader.defineClass(ClassLoader.java:620)<Lindahttps://www.blogger.com/profile/06643654259034647267noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-40200187167157773322008-06-11T10:51:00.000+02:002008-06-11T10:51:00.000+02:00Kay, this is fixed now.Kay, this is fixed now.Pierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-21904675140213954742008-06-11T10:15:00.000+02:002008-06-11T10:15:00.000+02:00Thanks, this is a bug, articles without ISSN have ...Thanks, this is a bug, articles without ISSN have a wrong impact factorPierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-23861680321503750922008-06-11T10:02:00.000+02:002008-06-11T10:02:00.000+02:00Wow, I would never have guessed that "Acta biochim...Wow, I would never have guessed that "Acta biochimica et biophysica Academiae Scientiarum Hungaricae" is <I>that</I> influential!<BR/>This journal leaves Nature, Science and Cell in the dust.Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-14688252.post-74432519864583194662008-06-10T22:48:00.000+02:002008-06-10T22:48:00.000+02:00This is just a trivial java program Deepak !Not a ...This is just a trivial java program Deepak !<BR/>Not a greasmonkey script working with NCBI :-)Pierre Lindenbaumhttps://www.blogger.com/profile/13765837643388003852noreply@blogger.comtag:blogger.com,1999:blog-14688252.post-90665614204449222422008-06-10T22:35:00.000+02:002008-06-10T22:35:00.000+02:00Wonderful stuff. Can't wait to play around once I...Wonderful stuff. Can't wait to play around once I am on a faster wifi connection. Especially with trying to visualize the resultsAnonymousnoreply@blogger.com