From owner-acedb@net.bio.net Tue Jun 01 00:41:00 1999 Path: biosci!DMSNA.DMS.UNINA.IT!joro79 From: joro79@DMSNA.DMS.UNINA.IT Newsgroups: bionet.software.acedb Subject: ADV: Photo Mousepads......These are cool! Date: 31 May 1999 18:41:50 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 119 Sender: daemon@net.bio.net Distribution: world Message-ID: <199905311613QAA3144@heyemailsavestrees.chemie.uni-wuerzburg.de> NNTP-Posting-Host: net.bio.net To be removed from our mailing list please call 800-242-0363 ext. 2759 This is a one time mailing and you will not receive another offer. Please click delete. GREAT GRADUATION GIFT IDEA! MOUSEPADS WITH YOUR FAVORITE PHOTOS! Need a new look for your desk? Need a new mousepad to go with your new computer? Now you can have your favorite photos printed onto mousepads! Photo mousepads are our most popular gift year after year! In the past we have provided our HIGH QUALITY mousepads to thousands of customers. 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From owner-acedb@net.bio.net Tue Jun 01 08:00:00 1999 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.software.acedb Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 1 Jun 1999 02:00:20 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 233 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906010900.CAA21735@net.bio.net> NNTP-Posting-Host: net.bio.net (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than the one in your mail message header, you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. From owner-acedb@net.bio.net Tue Jun 01 15:33:00 1999 Path: biosci!charite.de!Pavlos.Chaitidis From: Pavlos.Chaitidis@charite.de (Pavlos Chaitidis) Newsgroups: bionet.software.acedb Subject: Peace Declaration Date: 1 Jun 1999 09:33:18 -0700 Organization: Institut f|r Biochemie, Chariti, Berlin Lines: 87 Sender: daemon@net.bio.net Distribution: world Message-ID: <375409E1.21B1@charite.de> Reply-To: Pavlos.Chaitidis@charite.de NNTP-Posting-Host: net.bio.net Dear Colleague, Many members of the academic community, from all religions and national origins around the world, are already raising their voice to stop this pointless war now and follow a peaceful procedure, as the only way that can really protect the human rights of everyone involved. I thus take the liberty to invite you to read the following declaration and, if you agree, endorse it by just giving your name, title, affiliation and (OPTIONALLY) your e-mail address at the URL:http://www.hpclab.ceid.upatras.gr/peace.html. If you agree please forward it to others as well. This statement will be communicated to mass media. ----------------------------------------------------------------------------------------------------------------- DECLARATION More than seven weeks have gone by, during which the U.S./NATO military intervention against Yugoslavia has incessantly continued to spread death, destruction and misery over a large part of the Balkans. The stated purpose of the intervention was humanitarian. However, the means used and the results achieved have practically defeated all original intentions. This war seems even more senseless now that a framework for a peaceful solution has been reached by the G-8 countries. U.S. and NATO have acted on their own, bypassing completely the United Nations and the Security Council. Thus, by striking a blow to the decisive role that these bodies are meant to play in such crises, NATO military commanders are attempting to establish a new world order, in which they alone will be deciding what is wrong and what is right, and whether sovereign countries should be attacked. With the pretext of protecting the legitimate human rights of the Kossovar-Albanians they have brought about extensive civilian casualties and large-scale destruction of non-military installations. We are witnessing the killing of innocent people (Serbs and Albanians of Kossovo), attacks on civilian carriers, refugee convoys, sleeping villages, medical first-aid teams, television stations and even the Chinese embassy. The arrogant reaction of NATO to these unprecedented massacres demonstrates further the inhumane nature of this intervention. All this has resulted in the strengthening of the influence of the very person they aimed to defeat in Yugoslavia. The environmental disasters are already extremely serious. The soil and rivers of Yugoslavia have been extensivily contaminated by chemicals from bombarded industrial plants and the effects will be felt for many years and by several countries surrounding Yugoslavia. We also warn against potentially very dangerous incidents, resulting from missiles falling on other countries, such as Bulgaria, where the nuclear plant of Kozlodui is located. The Balkan region has been dangerously destabilized. Perhaps the greatest suffering has been afflicted to the hundreds of thousands of refugees who have been displaced from their homes as a result of atrocities committed by all sides. Countries neighboring to Yugoslavia are stretched to their limits, in their effort to help these refugees. Their economy has experienced a very serious set back which makes their very existence now more heavily dependent on aid provided by the U.S. and the European Union. In view of all this: We, the undersigned members of the international community strongly demand that this NATO led aggression be immediately stopped. A peaceful solution must be sought now with the framework of the proposal of the G-8 countries and supervised by the United Nations. This is the only morally acceptable and practically effective way for protecting human rights for Kossovar-Albanians and Serbs in the Balkans as well as for all people who suffer anywhere in the world. From owner-acedb@net.bio.net Thu Jun 03 11:53:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!uchinews2!newsswitch.lcs.mit.edu!newsfeed.cwix.com!209.44.33.119!hub1.ispnews.com!cyc12.deja.bcandid.com!nntp1.deja.com!nnrp2.deja.com!nntp2.deja.com!nnrp1.deja.com!not-for-mail From: zgudmunt@my-deja.com Newsgroups: bionet.software.acedb Subject: ACEDB-a viable option? Tutorials? Date: Wed, 02 Jun 1999 16:07:28 GMT Organization: Deja.com - Share what you know. Learn what you don't. Lines: 15 Message-ID: <7j3krp$msc$1@nnrp1.deja.com> NNTP-Posting-Host: 193.4.196.222 X-Article-Creation-Date: Wed Jun 02 16:07:28 1999 GMT X-Http-User-Agent: Mozilla/4.6 [en] (WinNT; I) X-Http-Proxy: 1.0 proxy.decode.is:8080 (Squid/2.1.PATCH2), 1.0 x37.deja.com:80 (Squid/1.1.22) for client 172.18.253.134, 193.4.196.222 Hello. I have recently been exploring the possibilities of ACEDB as a viable option for genome mapping projects. I have found quite a lot of information on the Web, but since much of that is often not up to date I am worried that perhaps development is not as active as it may have been in the past. ACEDB may thus not be a good investment in time effort in spite of many advantages. So, the latest news regarding those issues would be welcome on this list, to which I have just subscribed. With regards: Gudmundur Arni Thorisson Sent via Deja.com http://www.deja.com/ Share what you know. Learn what you don't. From owner-acedb@net.bio.net Thu Jun 03 14:28:00 1999 Reply-To: "warez" From: "warez" Newsgroups: bionet.software.acedb Subject: Norman: Who is the biggest deceiver? Date: Thu, 3 Jun 1999 17:08:58 +0400 Lines: 24 X-Priority: 3 X-MSMail-Priority: Normal X-Newsreader: Microsoft Outlook Express 5.00.2314.1300 X-MimeOLE: Produced By Microsoft MimeOLE V5.00.2314.1300 NNTP-Posting-Host: dialup40.sia.telecom.lt Message-ID: <37569c6d@news.takas.lt> X-Trace: 3 Jun 1999 17:17:01 +0100, dialup40.sia.telecom.lt Path: biosci!rutgers!rockyd.rockefeller.edu!news-nysernet-16.sprintlink.net!news-east1.sprintlink.net!news-peer1.sprintlink.net!news-peer-europe.sprintlink.net!news.sprintlink.net!news.algonet.se!algonet!masternews.telia.net!news.takas.lt!dialup40.sia.telecom.lt About "some bad words from some guys in the newsgroups": I should say that it is the normal thing in our world. When people are doing the same thing (selling), there is some kind of competition between them. Also you can not be liked by everyone. Those people who write there about unrecieved orders, lost payments are simply lying, because I do not know them at all. They are not my clients. Instead of informing me about lost orders and money, they write to the newsgroups shouting to the whole world about "Norman - deceiver". Who is the biggest deceiver? If my clients have some problems, first of all they inform me about - so they recieve Help. Anyway everyone have his right of choice! Norman From owner-acedb@net.bio.net Thu Jun 03 18:50:00 1999 Path: biosci!sanger.ac.uk!edgrif From: edgrif@sanger.ac.uk (Ed Griffiths) Newsgroups: bionet.software.acedb Subject: Re: ACEDB-a viable option? Tutorials? Date: 3 Jun 1999 12:50:38 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 40 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <7j3krp$msc$1@nnrp1.deja.com> NNTP-Posting-Host: net.bio.net Gudmundur, You might like to know that there are now more people working full time on ACEDB (including me !) than ever before. It is seen as a crucial piece of software for the Sanger Centre where most of the ACEDB developers work so please DON'T think this is some out-of-date/dead piece of software. You are right to say that documentation is not as good as it could be, but we are working on it. Please let us know (you can mail be direct) of any documentation that is out of date etc, etc., we plan to make a major effort to improve it this year. cheers Ed On Wed, 2 Jun 1999 zgudmunt@my-deja.com wrote: > Hello. I have recently been exploring the possibilities of ACEDB as a > viable option for genome mapping projects. I have found quite a lot of > information on the Web, but since much of that is often not up to date I > am worried that perhaps development is not as active as it may have been > in the past. ACEDB may thus not be a good investment in time effort in > spite of many advantages. So, the latest news regarding those issues > would be welcome on this list, to which I have just subscribed. With > regards: > > > Gudmundur Arni Thorisson > > > Sent via Deja.com http://www.deja.com/ > Share what you know. Learn what you don't. > ------------------------------------------------------------------------------ | Ed Griffiths, Informatics Group, | | The Sanger Centre, Wellcome Trust Genome Campus, | | Hinxton, Cambridge CB10 1SA, UK | | | | email: edgrif@sanger.ac.uk URL: http://www.sanger.ac.uk/Users/edgrif | | Tel: +44-1223-494780 (switch +44 1223 834244) Fax: +44 1223 494919 | ------------------------------------------------------------------------------ From owner-acedb@net.bio.net Fri Jun 04 10:57:00 1999 Path: biosci!sb-roscoff.fr!est From: est@sb-roscoff.fr (laminaria.EST) Newsgroups: bionet.software.acedb Subject: Re : Blixem_X in the ?Method Date: 4 Jun 1999 04:57:12 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 61 Sender: daemon@net.bio.net Distribution: world Message-ID: <9906041151.AA08795@olrik.sb-roscoff> NNTP-Posting-Host: net.bio.net Brian Fristensky wrote : Whoa -- I guess I missed something. What is a ?Method object, and can these be defined within ACeDB or Blixem? Where are ?Method objects documented? --------------------------------- Hello What I have understood is that ?Method object correspond to the display definition. Following is a copy of the ?Method as defined in the ACEDB 4_7g model. I do not know where it is documented. If somebody knows, I am interested. ?Method Remark ?Text // the Display information controls how the column looks. Display Colour #Colour Frame_sensitive Strand_sensitive Show_up_strand #Colour Score Score_by_offset // has priority over width, for Jean Score_by_width Score_by_histogram UNIQUE Float // baseline value Score_bounds UNIQUE Float UNIQUE Float // limits for squashing Percent // '%' in text, + default bounds 25, 100 Overlap_mode UNIQUE Overlap // draw on top - default Bumpable // bump to avoid overlap Cluster // one column per homol target Width UNIQUE Float Symbol UNIQUE Text // first char only is used Right_priority UNIQUE Float // the greater the more right Max_mag UNIQUE Float // don't show if more bases per line Min_mag UNIQUE Float // don't show if fewer bases per line Show_text // only put text in right-hand column if set Blastn // can calculate percent from score if blastn Blixem Blixem_X Blixem_N Blixem_P Belvu EMBL_dump EMBL_feature UNIQUE Text // require this EMBL_threshold UNIQUE Float // apply to score unless overridden EMBL_qualifier Text UNIQUE Text // if 1 Text, it is the entire qualifier including '/' // if 2 Texts, 1st is an sprintf format and 2nd is // an argument. If this is "score", "note", "y1", "y2" or "target" // then use the corresponding field of the Feature or Homol line. // multiple formats will be concatenated until one starts with '/'. Gene_assemble Gene_assemble_method ?Method UNIQUE Float // Float factor to multiply score by Intron_min UNIQUE Int Exon_min UNIQUE Int Intron_cost UNIQUE Float UNIQUE Float UNIQUE Int // base cost, cost per log bp beyond min // Int is min for this if not Intron_min Inter_gene_cost UNIQUE Float GF_parameters GF_range UNIQUE Int // +- range for genefinder feature calculation GF_ATG_cutoff UNIQUE Float GF_5_cutoff UNIQUE Float GF_3_cutoff UNIQUE Float GFF GFF_source UNIQUE Text GFF_feature UNIQUE Text EMBL_dump_info #EMBL_dump_info // when used for controlling dump From owner-acedb@net.bio.net Fri Jun 04 15:23:00 1999 Path: biosci!newshost.lanl.gov!arclight.uoregon.edu!hammer.uoregon.edu!newsfeed.direct.ca!cyclone.bc.net!cyclone.mbnet.mb.ca!canopus.cc.umanitoba.ca!not-for-mail From: Brian Fristensky Newsgroups: bionet.software.acedb Subject: Re: Re : Blixem_X in the ?Method Date: Fri, 04 Jun 1999 11:17:30 -0500 Organization: University of Manitoba Lines: 115 Message-ID: <3757FC1A.B2975C7D@cc.umanitoba.ca> References: <9906041151.AA08795@olrik.sb-roscoff> NNTP-Posting-Host: brassica.cc.umanitoba.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: canopus.cc.umanitoba.ca 928513051 4968 130.179.16.121 (4 Jun 1999 16:17:31 GMT) X-Complaints-To: Postmaster@cc.umanitoba.ca NNTP-Posting-Date: 4 Jun 1999 16:17:31 GMT X-Mailer: Mozilla 4.51 [en] (X11; U; SunOS 5.5.1 sun4u) X-Accept-Language: en "laminaria.EST" wrote: > > Brian Fristensky wrote : > > Whoa -- I guess I missed something. What is a ?Method object, and > can these be defined within ACeDB or Blixem? Where are ?Method > objects documented? > --------------------------------- > > Hello > > What I have understood is that ?Method object correspond to the display definition. Following is a copy of the ?Method as defined in the ACEDB 4_7g model. I do not know where it is documented. If somebody knows, I am interested. > > ?Method Remark ?Text > // the Display information controls how the column looks. > Display Colour #Colour > Frame_sensitive > Strand_sensitive Show_up_strand #Colour > Score Score_by_offset // has priority over width, for Jean > Score_by_width > Score_by_histogram UNIQUE Float // baseline value > Score_bounds UNIQUE Float UNIQUE Float > // limits for squashing > Percent // '%' in text, + default bounds 25, 100 > Overlap_mode UNIQUE Overlap // draw on top - default > Bumpable // bump to avoid overlap > Cluster // one column per homol target > Width UNIQUE Float > Symbol UNIQUE Text // first char only is used > Right_priority UNIQUE Float // the greater the more right > Max_mag UNIQUE Float // don't show if more bases per line > Min_mag UNIQUE Float // don't show if fewer bases per line > Show_text // only put text in right-hand column if set > Blastn // can calculate percent from score if blastn > Blixem Blixem_X > Blixem_N > Blixem_P > Belvu > EMBL_dump EMBL_feature UNIQUE Text // require this > EMBL_threshold UNIQUE Float // apply to score unless overridden > EMBL_qualifier Text UNIQUE Text > // if 1 Text, it is the entire qualifier including '/' > // if 2 Texts, 1st is an sprintf format and 2nd is > // an argument. If this is "score", "note", "y1", "y2" or "target" > // then use the corresponding field of the Feature or Homol line. > // multiple formats will be concatenated until one starts with '/'. > Gene_assemble Gene_assemble_method ?Method UNIQUE Float > // Float factor to multiply score by > Intron_min UNIQUE Int > Exon_min UNIQUE Int > Intron_cost UNIQUE Float UNIQUE Float UNIQUE Int > // base cost, cost per log bp beyond min > // Int is min for this if not Intron_min > Inter_gene_cost UNIQUE Float > GF_parameters GF_range UNIQUE Int > // +- range for genefinder feature calculation > GF_ATG_cutoff UNIQUE Float > GF_5_cutoff UNIQUE Float > GF_3_cutoff UNIQUE Float > GFF GFF_source UNIQUE Text > GFF_feature UNIQUE Text > EMBL_dump_info #EMBL_dump_info // when used for controlling dump -- So, this object, whose name is Method, is used for displaying output from various programs such as BLAST, BLIXEM, GENEFINDER etc. This raises several new points: 1. I get the feeling that I still don't have the entire story on ?Method. For example, in the ACeDB models.wrm file listed at http://probe.nalusda.gov:8000/acedocs/models/models.html has a very different object called ?Models, so I guess that the above object definition is specific to a particular ACeDB-based database. Nonetheless, this definition seems to imply that output from various programs is being displayed by ACeDB. Presumably, that is done by Pick_me_to_call from some other object? Or is there a mechanism for xace to display the output? 2. At the risk of being impertinent, in my humble opinion, it is not a good idea to call an object by the name "Method", because the word "method" has a very precise, and important meaning in Object-Oriented Programming. 3. On that subject, here is a probably naive question. As an idea for the future evolution of ACeDB, is it plausible for objects to have methods, in the OOP sense? This could be implemented in a very limited way, much along the lines of how 'Pick_me_to_call' is implemented now. That is, as a way for calling external programs, or displaying files or output from programs. Is it possible to get even more sophisticated, such as interfacing with CORBA objects and their methods? I don't think we want to see xace itself become bloatware. Rather, I like the idea of being able to use external objects and methods to extend functionality, in a manner analogous to how GDE can run most types of sequence analysis programs. =============================================================================== Brian Fristensky | Original entry for Microsoft Windows, Department of Plant Science | in the Hitchiker's Guide to University of Manitoba | the Galaxy: "Harmless". Winnipeg, MB R3T 2N2 CANADA | frist@cc.umanitoba.ca | After the release of Windows NT, this Office phone: 204-474-6085 | was changed to "Mostly harmless". FAX: 204-261-5732 | http://home.cc.umanitoba.ca/~frist/ =============================================================================== From owner-acedb@net.bio.net Fri Jun 04 15:41:00 1999 Path: biosci!GENOME.STANFORD.EDU!cherry From: cherry@GENOME.STANFORD.EDU (Mike Cherry) Newsgroups: bionet.software.acedb Subject: Re: Re : Blixem_X in the ?Method Date: 4 Jun 1999 09:41:24 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 46 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906041635.JAA08180@genome.Stanford.EDU> References: <3757FC1A.B2975C7D@cc.umanitoba.ca> NNTP-Posting-Host: net.bio.net > 1. I get the feeling that I still don't have the entire story on > ?Method. > For example, in the ACeDB models.wrm file listed at > > http://probe.nalusda.gov:8000/acedocs/models/models.html > > has a very different object called ?Models, so I guess that > the above object definition is specific to a particular > ACeDB-based database. It is not a good idea to use the NAL site as example is current information. Note the dates on those files, those are for a very old version of the software. If you are using current software use the models.wrm from the C. elegans ACeDB database distribution to see the current usage and features. Also I wouldn't trust the databases from NAL without checking with the specific database group to confirm that the NAL version is current. Some are out of date. database version -------------------------------- AaeDB Jun 01 1995 AAtDB Dec 21 1994 ACeDB Dec 21 1994 Alfagenes Jul 13 1995 BeanGenes Jan 25 1995 ChlamyDB Dec 21 1994 CottonDB Jan 13 1995 EthnobotDB Jun 29 1995 FoodplantDB Jun 12 1995 GrainGenes Dec 21 1994 Human Chromosome 21 Dec 21 1994 Human X Chromosome Dec 21 1994 Mace (MaizeDB) Dec 21 1994 MPNADB Jun 29 1995 MycDB Mar 1 1995 PhytochemDB Jun 12 1995 RiceGenes Dec 21 1994 SacchDB Mar 1 1995 SolGenes Dec 21 1994 SorghumDB Jan 12 1995 Soybase Dec 21 1994 TreeGenes Dec 21 1994 AGsDB Dec 21 1994 Mike From owner-acedb@net.bio.net Sat Jun 05 00:18:00 1999 Path: biosci!JUNO.COM!srchnznngzz From: srchnznngzz@JUNO.COM Newsgroups: bionet.software.acedb Subject: Get Listed-2000 Search Engines Date: 4 Jun 1999 18:18:12 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 53 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906050111.UAA06003@uiip> Reply-To: srchzngz@hotbot.com NNTP-Posting-Host: net.bio.net ___________________________________________________________ !!ONE TIME ONLY !!!!! !!! 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If you wish to be removed from this advertiser's future mailings, please reply with the subject "Remove" and this software will automatically block you from their future mailings. From owner-acedb@net.bio.net Sat Jun 05 18:34:00 1999 Path: biosci!GREENGENES.CIT.CORNELL.EDU!matthews From: matthews@GREENGENES.CIT.CORNELL.EDU ("Dave Matthews") Newsgroups: bionet.software.acedb Subject: Re: Re : Blixem_X in the ?Method Date: 5 Jun 1999 12:34:25 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 36 Sender: daemon@net.bio.net Distribution: world Message-ID: <9906051929.AA14332@greengenes.cit.cornell.edu> NNTP-Posting-Host: net.bio.net Hi Brian, > So, this object, whose name is Method, is used for displaying output > from various > programs such as BLAST, BLIXEM, GENEFINDER etc. ... > > 1. I get the feeling that I still don't have the entire story on > ?Method. > ..., this definition seems to imply that output from > various programs is being displayed by ACeDB. Presumably, > that is done by Pick_me_to_call from some other object? > Or is there a mechanism for xace to display the output? The Sequence display shows homology bars according the Method specified: ?Sequence Homol DNA_homol ?Sequence ?Method Float Int UNIQUE Int Int UNIQUE Int Pep_homol ?Protein ?Method Float Int UNIQUE Int Int UNIQUE Int Motif_homol ?Motif ?Method Float Int UNIQUE Int Int UNIQUE Int The results from external programs must be reformatted and loaded into ACEDB as Sequence data corresponding to this model. > 2. At the risk of being impertinent, in my humble opinion, > it is not a good idea to call an object by the name "Method", > because the word "method" has a very precise, and important > meaning in Object-Oriented Programming. There a number of words that have very different meanings in different contexts. In this case I think the sense is that any given sequence homology will have been determined according to a particular combination of parameters and source database, the method. The ?Method tags allow the Sequence display to show different methods separate from each other, and in different ways as appropriate. - Dave From owner-acedb@net.bio.net Sat Jun 05 18:47:00 1999 Path: biosci!GREENGENES.CIT.CORNELL.EDU!matthews From: matthews@GREENGENES.CIT.CORNELL.EDU ("Dave Matthews") Newsgroups: bionet.software.acedb Subject: NAL's models.html Date: 5 Jun 1999 12:47:51 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 17 Sender: daemon@net.bio.net Distribution: world Message-ID: <9906051942.AA14356@greengenes.cit.cornell.edu> NNTP-Posting-Host: net.bio.net > > For example, in the ACeDB models.wrm file listed at > > http://probe.nalusda.gov:8000/acedocs/models/models.html ... > > It is not a good idea to use the NAL site as example is current > information. Note the dates on those files, those are for a very old > version of the software. If you are using current software use the > models.wrm from the C. elegans ACeDB database distribution to see the > current usage and features. Yes, that web page probably seemed like a good idea in 95 but no one has maintained it. We were planning to delete it. What do people think? There are only a few databases that have interesting models.wrm's, mainly Celegans which is included in the software distribution. I find it most useful to browse or search databases till I find an interesting display feature, then look at the text data and corresponding model. - Dave From owner-acedb@net.bio.net Sat Jun 05 19:55:00 1999 Path: biosci!GREENGENES.CIT.CORNELL.EDU!matthews From: matthews@GREENGENES.CIT.CORNELL.EDU ("Dave Matthews") Newsgroups: bionet.software.acedb Subject: NAL databases Date: 5 Jun 1999 13:55:18 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 21 Sender: daemon@net.bio.net Distribution: world Message-ID: <9906052049.AA14391@greengenes.cit.cornell.edu> NNTP-Posting-Host: net.bio.net > Also I wouldn't trust the databases from > NAL without checking with the specific database group to confirm that > the NAL version is current. Some are out of date. Okay, it's time for an announcement to this group. The databases at probe.nalusda.gov are to be moved to http://genome.cornell.edu. The ones that have been moved already and the new implementation approved by their curators are being auto-redirected from NAL to our server. Some others are being redirected to their own servers. Any that are still accessible on the NAL server may be considered the most recent available. We want to maintain that last sentence as a truth statement. If you have a database at NAL that doesn't match it, please contact me. Including if you find any URLs to your moved database that we haven't found and redirected. 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Something like "The user is supposed to be able to optimize queries himself." I don't buy it. My users are a long way from being this sophisticated. I could write this code myself. : input: query find sequence probe = * code: if COUNT Probe < COUNT Sequence find probe; follow sequence else query find sequence probe = * Granted I haven't actually looked into the code to see where this would plug in. But I'm mystified why this would be hard, or not desirable. - Dave > To: acedb@net.bio.net > Subject: performance of field-specified query vs. "follow" > Date: 27 Jul 1998 19:22:08 -0700 > > I've been noticing how fast the "follow" query command seems, relative to > querying on the value of a field. And that a query on any XREF'd field can > be framed either way. So I decided to run a quantitative comparison in > tace. See below. Result is that "follow" is a heck of a lot faster. > > My question is, could the code be made to check whether a queried field is > XREF'd, and if so automatically use a "follow" approach? > > acedb> find probe > 1 sec > // Found 8169 objects in this class > > acedb> follow sequence > 7 sec > // Found 1636 objects > > acedb> query find sequence probe [64570 Sequence objects] > 150 sec > // Found 1636 objects From owner-acedb@net.bio.net Sun Jun 06 06:30:00 1999 Newsgroups: bionet.software.acedb Path: biosci!agate!newsfeed.berkeley.edu!newsfeed.enteract.com!ix.netcom.com!bks From: bks@netcom.com (Bradley K. Sherman) Subject: Re: NAL's models.html Message-ID: Organization: DNA + Sunlight References: <9906051942.AA14356@greengenes.cit.cornell.edu> Date: Sun, 6 Jun 1999 07:20:29 GMT Lines: 13 Sender: bks@netcom2.netcom.com In article <9906051942.AA14356@greengenes.cit.cornell.edu>, Dave Matthews wrote: > ... >Yes, that web page probably seemed like a good idea in 95 but no one has >maintained it. We were planning to delete it. What do people think? > ... No! There are some interesting ideas and data. Put an 'obsolete' flag on the site if you wish, but it represents a publication of a body of work, and it is the sole copy. --bks From owner-acedb@net.bio.net Sun Jun 06 07:17:00 1999 Path: biosci!GENOME.STANFORD.EDU!cherry From: cherry@GENOME.STANFORD.EDU (Mike Cherry) Newsgroups: bionet.software.acedb Subject: Re: NAL's models.html Date: 6 Jun 1999 01:17:49 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 25 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906060803.BAA13788@fafner.Stanford.EDU> References: NNTP-Posting-Host: net.bio.net I agree it is worth saving exactly for the reason Brad states, and it should be labelled for what it is -- very old examples. As you are putting all the current ACEDB databases up at Cornell how about making the current models.wrm files available, that would makes the old models less interesting. 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Put an 'obsolete' > flag on the site if you wish, but it represents a publication of > a body of work, and it is the sole copy. > > --bks > > From owner-acedb@net.bio.net Sun Jun 06 13:52:00 1999 From: uyyyot@hotmail.com Newsgroups: bionet.software.acedb Subject: FREE XXX SEX PICTURES FOR YOU! 1058 Message-ID: Date: Sun, 06 Jun 1999 13:56:32 GMT NNTP-Posting-Host: 195.171.228.107 X-Trace: newreader.ukcore.bt.net 928677392 195.171.228.107 (Sun, 06 Jun 1999 14:56:32 BST) NNTP-Posting-Date: Sun, 06 Jun 1999 14:56:32 BST Lines: 5 Path: biosci!webtv.net!news.spies.com!news.sgi.com!nntp.primenet.com!dispose.news.demon.net!demon!peernews!peer.news.bb.u-net.net!u-net!peer.news.zetnet.net!btnet-feed1!btnet!newreader.ukcore.bt.net!not-for-mail For literally 1000s of free sex pictures goto: http://www.bigwig.net/reality/default.htm zbrzcnjytirckswmflwjjbcf From owner-acedb@net.bio.net Sun Jun 06 22:09:00 1999 Path: biosci!GREENGENES.CIT.CORNELL.EDU!matthews From: matthews@GREENGENES.CIT.CORNELL.EDU ("Dave Matthews") Newsgroups: bionet.software.acedb Subject: Re: NAL's models.html Date: 6 Jun 1999 16:09:59 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 13 Sender: daemon@net.bio.net Distribution: world Message-ID: <9906062304.AA15170@greengenes.cit.cornell.edu> NNTP-Posting-Host: net.bio.net Okay, done. http://genome.cornell.edu/acedoc/models.html I hope you folks will have a little patience with us as we work through this transition, especially with regard to the ACEDB Documentation Library. We haven't actually hired any staff to run this server yet so we're a bit outgunned at present. - Dave Mike said: > As you are putting all the current ACEDB databases up at Cornell how about > making the current models.wrm files available From owner-acedb@net.bio.net Mon Jun 07 10:01:00 1999 Path: biosci!MINDSPRING.COM!toukol From: toukol@MINDSPRING.COM Newsgroups: bionet.software.acedb Subject: Homeworkers Needed! Date: 7 Jun 1999 04:00:58 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 143 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906071100.EAA08965@net.bio.net> NNTP-Posting-Host: net.bio.net Dear Future Associate, You Can Work At Home & Set Your Own Hours. Start earning Big Money in a short time NO Newspaper Advertising! Your job will be to stuff and mail envelopes for our company. You will receive $.25 for each and every envelope you stuff and mail out. 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We will gladly furnish all circulars at no cost to you. We assure you that as a participant in our program you will never have to mail anything objective or offensive. There are no quotas to meet, and there no contracts to sign. You can work as much, or as little as you want. Payment for each envelope you send out is Guaranteed! Here is what you will receive when you get your first Package. Inside you will find 100 envelopes, 100 labels and 100 sales letters ready to stuff and mail As soon as you are done with stuffing and mailing these first letters, your payment will arrive shortly, thereafter. All you have to do is to order more free supplies and stuff and mail more envelopes to make more money. Our sales literature which you will be stuffing and mailing will contain information outlining our highly informative manuals that we are advertising nationwide. As a free gift you will receive a special manual valued at $24.95, absolutely free, just for joining our Home Mailers Program. Plus you will get your own special code number, so that we will know how much you are to get paid. And to make re-ordering of more envelopes, that our company supplies very simple for you. We are giving you this free bonus because we want you to be confident in our company and to ensure that we will be doing business with you for a long time. Benefits Of This Job: 1. You do not have to quit your present job, to earn more money at home 2. You can make between $2,500 to $4,500 a month depending on the amount of time you are willing to spend stuffing and mailing envelopes 3. This is a great opportunity for the students, mothers, disabled persons or those who are home bodies. To secure your position and to show us that you are serious about earning extra income at home we require a one-time registration fee of $35.00. This fee covers the cost of your initial start up package, which includes 100 envelopes, 100 labels and 100 sales letters and a manual, your registration fee will be refunded back to you shortly thereafter. Money Back Guarantee! We guarantee that as soon as you stuff and mail your first 300 envelopes You will be paid $75.00 and your registration fee will be refunded. Many of you wonder why it is necessary to pay a deposit to get a job. It is because we are looking for people that seriously want to work from home. * If 3.000 people told us they wanted to start working from home and we sent out 3.000 packages free to every one. And then half of the people decided not to work, this would be a potential loss of more than $60,000 in supply's and shipping that we have sent out to people that don't want to work We have instituted this policy to make sure that you really want to work and at least finish your first package. To Get Started Today Please Enclose Your Registration Fee of $35 Check,Cash Or Money Order and fill out the application below and mail to: AHWA CO 425 S Fairfax Blvd., STE 306 Los Angeles, CA 90036 Name_____________________________________________________ Address___________________________________________________ City____________________________________ State______________ Zip Code________________ Telephone Number(s)_________________________________________ E-mail Address______________________________________________ For all orders, please allow seven (7) days for delivery and up to 10 days. Cash and Money Orders will result in faster shipping of your package. From owner-acedb@net.bio.net Thu Jun 10 01:19:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!newsfeed.berkeley.edu!CS.Arizona.EDU!noao!math.arizona.edu!news.Arizona.EDU!not-for-mail From: Paul Muhlrad Newsgroups: bionet.software.acedb Subject: viewing YAC grids Date: Wed, 09 Jun 1999 14:09:16 -0700 Organization: University of Arizona Lines: 15 Message-ID: <375ED7FA.33BF65D5@u.arizona.edu> NNTP-Posting-Host: mcb.biosci.arizona.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii; x-mac-type="54455854"; x-mac-creator="4D4F5353" Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.6 (Macintosh; U; PPC) X-Accept-Language: en I can't seem to view the YAC grids in either webace or aceperl (our local unix acedb is currently out of commission, so I don't know if it works on that or not). Can someone tell me how to do this? Thanks. Paul -- Paul Muhlrad University of Arizona, Department of Molecular and Cellular Biology 415 Life Sciences South, Tucson, AZ 85721 pmuhlrad@u.arizona.edu | (520) 621-9135 | fax (520) 621-3709 http://www.mcb.arizona.edu/wardlab From owner-acedb@net.bio.net Thu Jun 10 18:09:00 1999 Path: biosci!USA.NET!stocks99 From: stocks99@USA.NET Newsgroups: bionet.software.acedb Subject: ADV: ANALYSTS CHOOSE "ADLU" MICROCAP BESTOCK PICK Date: 10 Jun 1999 12:09:04 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 87 Sender: daemon@net.bio.net Distribution: world Message-ID: <989.283923.89824.stocks99@usa.net> NNTP-Posting-Host: net.bio.net ***** We believe in opt-in policies. If you did not request this investor email, please do not reply, you will be taken off our email list automatically,or reply with remove** ADLUE - OTC:BB - Patented, Trademarked Products, Top Management, SEC Form 10 Reporting Compliance, Big Four Accounting and Audits, International Advertising Campaign, Digital Imaging and Internet Applications, Good Investor Relations, Small Float. This Micro-Cap is doing everything right ! ----------------------------------------------------------------- ----------- ---------------------------------------------- Dear Investor, The analysts at BESTOCKPIX have chosen ADLUE as a Micro-Cap June '99 First Pick. This Swiss based, surface coating technology company is doing everything investors look for. The ADLUE consumer market - Digital Imagery and Internet Printing applications - is an 85 billion photographs per year target market and growing. 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To receive a full list of BESTOCKPIX monthly, for an annual fee of $50 U.S., plese reply to mailto:bestockpix@mailcity.com with "subscribe" in subject line. ----------------------------------------------------------------- ----------- ---------------------------------------------- BESTOCKPIX invests in 'First Pick' recomendations and currently owns shares of ADLUE common stock. ----------------------------------------------------------------- ----------- --------------------------------------------- This ad is being sent in compliance with Senate bill 1618, Title 3, section 301. http://www.senate.gov/~murkowski/commercialemail/S771index.html From owner-acedb@net.bio.net Fri Jun 11 03:25:00 1999 Path: biosci!MAILCITY.COM!Merchants-Now From: Merchants-Now@MAILCITY.COM Newsgroups: bionet.software.acedb Subject: Increase Business - Accept Credit Date: 10 Jun 1999 21:25:28 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 41 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906110341.LAA02815@www.fjnet.net.cn> Reply-To: Notthanks@bigfoot.com NNTP-Posting-Host: net.bio.net Increase Your Business Up To 100% Or More, Just By Accepting Credit Cards! 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You will receive your requested information within 24-72 hours! _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ If you have received this message in error, please email Notthanks@bigfoot.com with the word remove in the subject. _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ _/ From owner-acedb@net.bio.net Fri Jun 11 16:59:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!remarQ73!supernews.com!remarQ.com!remarQ69!news.remarQ.com!not-for-mail From: "John Choi" Newsgroups: bionet.software.acedb Subject: Crashed hard drive? Date: Fri, 11 Jun 1999 10:49:46 -0700 Organization: Encore Software, Inc. Lines: 278 Message-ID: <929123595.812.51@news.remarQ.com> Reply-To: "John Choi" NNTP-Posting-Host: 207.171.0.59 NNTP-Posting-Date: Fri, 11 Jun 1999 17:53:15 GMT X-Trace: 929123595.812.51 L1LSDA6WP003BCFABC qube-01.us-ca.remarq.com X-Complaints-To: newsabuse@remarQ.com MIME-Version: 1.0 Content-Type: multipart/alternative; boundary="----=_NextPart_000_0041_01BEB3F8.1EF3AD60" X-Priority: 3 X-MSMail-Priority: Normal X-Newsreader: Microsoft Outlook Express 5.00.2014.211 X-MimeOLE: Produced By Microsoft MimeOLE V5.00.2014.211 This is a multi-part message in MIME format. ------=_NextPart_000_0041_01BEB3F8.1EF3AD60 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable Hard Drive Mechanic Deluxe https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 The Only Utility That Recovers From Crashes & Warns of Disasters! - New Advanced Rescue Algorithms: Recovers automatically from over 98% = of software crashes on drives of any size - S.M.A.R.T. Technology: Warns weeks ahead of hard drive mechanical = failure - FAT 16 and 32 Compatible - Graphical User Interface The Most Powerful Hard Drive Utility for Restoring Your Computer to = Normal After a Crash! =20 Want to Know More? Click Here! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 - - - - - - - - - - -=20 $10 OFF only for usenet discussion group subscribers!!=20 =20 When asked for a coupon code during the ordering process, simply enter: COUPON CODE - - - - - - - > w132 < - - - - - - - COUPON CODE It's that easy!!! =20 - - - - - - - - - - -=20 What the Press and Computer Users Like YOU Say About Hard Drive Mechanic = Deluxe: News-Sentinel, Ft. Wayne "Riding to the rescue comes 'Hard Drive Mechanic Deluxe', a powerful = utility made for the PC user who doesn't have a computer science degree = from the Massachusetts Institute of Technology."=20 Rick Leyva, Associated Press (AP) "Hard Drive Mechanic Deluxe can bring considerable peace of mind for a = fairly modest price and could be priceless to the many average PC users = too busy to back up files." Scott Saari, webmaster@phoenixpcug.org "A total recovery from formatting the hard drive in than 30 minutes is = quite impressive. The program's graphical interface is easy to use, even = for a novice." David A. Burke, Coastal Area Users Group, Inc. "There are as many ways a computer can fail as there are people using = them. You would figure someone has thought of this happening and = invented something for it... it's called Hard Drive Mechanic Deluxe." Want to Know More? Click Here! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 - - - - - - - - - - -=20 $10 OFF only for usenet discussion group subscribers!!=20 =20 When asked for a coupon code during the ordering process, simply enter: COUPON CODE - - - - - - - > w132 < - - - - - - - COUPON CODE It's that easy!!! =20 Don't forget to take advantage of this PHENOMENAL offer on an equally = PHENOMENAL software title.=20 Don't suffer from the crashed hard drive blues!! Get Hard Drive Mechanic = Deluxe! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 J. Choi Internet Marketing Manager Encore Software, Inc. http://www.encoresoftware.com ------=_NextPart_000_0041_01BEB3F8.1EF3AD60 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable
Hard Drive Mechanic=20 Deluxe
 
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
The Only Utility That Recovers From = Crashes &=20 Warns of Disasters!
- New Advanced = Rescue=20 Algorithms: Recovers automatically from over 98% of software crashes = on drives=20 of any size
- S.M.A.R.T. = Technology: Warns=20 weeks ahead of hard drive mechanical = failure
- FAT 16 and 32=20 Compatible
- Graphical User=20 Interface
The Most Powerful Hard Drive Utility for = Restoring=20 Your Computer to Normal After a Crash!
 
Want to Know More? Click=20 Here!
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
- - - - - - - - - - -
 
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- - - - - - - - - - -
 
What the Press and Computer Users = Like YOU Say=20 About Hard=20 Drive Mechanic Deluxe:
 
News-Sentinel, Ft. Wayne
"Riding to the rescue comes 'Hard=20 Drive Mechanic Deluxe', a powerful utility made for the PC=20 user who doesn't have a computer science degree from = the=20 Massachusetts Institute of Technology."=20
Rick = Leyva, Associated=20 Press (AP)
"Hard=20 Drive Mechanic Deluxe can bring considerable peace of mind for a = fairly=20 modest price and could be priceless to the many average PC users too = busy to=20 back up files."
Scott Saari, webmaster@phoenixpcug.org
"A total recovery = from=20 formatting the hard drive in than 30 minutes is quite impressive. The=20 program's graphical interface is easy to use, even for a=20 novice."
David A. Burke, Coastal Area Users = Group,=20 Inc.
"There are as many = ways a=20 computer can fail as there are people using them. You would figure = someone has=20 thought of this happening and invented something for it... it's called = Hard=20 Drive Mechanic Deluxe."
Want to Know More? Click=20 Here!
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
- - - - - - - - - - -
 
$10 OFF only for usenet discussion group = subscribers!!=20
 
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J. Choi
Internet Marketing = Manager
Encore Software, Inc.
http://www.encoresoftware.= com
 
------=_NextPart_000_0041_01BEB3F8.1EF3AD60-- From owner-acedb@net.bio.net Fri Jun 11 16:59:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!skynet.be!news-feed.inet.tele.dk!bofh.vszbr.cz!remarQ-uK!rQdQ!supernews.com!remarQ.com!remarQ69!news.remarQ.com!not-for-mail From: "John Choi" Newsgroups: bionet.software.acedb Subject: Crashed hard drive? Date: Fri, 11 Jun 1999 10:48:59 -0700 Organization: Encore Software, Inc. Lines: 278 Message-ID: <929123547.492.65@news.remarQ.com> Reply-To: "John Choi" NNTP-Posting-Host: 207.171.0.59 NNTP-Posting-Date: Fri, 11 Jun 1999 17:52:27 GMT X-Trace: 929123547.492.65 L1LSDA6WP003BCFABC qube-02.us-ca.remarq.com X-Complaints-To: newsabuse@remarQ.com MIME-Version: 1.0 Content-Type: multipart/alternative; boundary="----=_NextPart_000_0036_01BEB3F8.02ECFEA0" X-Priority: 3 X-MSMail-Priority: Normal X-Newsreader: Microsoft Outlook Express 5.00.2014.211 X-MimeOLE: Produced By Microsoft MimeOLE V5.00.2014.211 This is a multi-part message in MIME format. ------=_NextPart_000_0036_01BEB3F8.02ECFEA0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable Hard Drive Mechanic Deluxe https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 The Only Utility That Recovers From Crashes & Warns of Disasters! - New Advanced Rescue Algorithms: Recovers automatically from over 98% = of software crashes on drives of any size - S.M.A.R.T. Technology: Warns weeks ahead of hard drive mechanical = failure - FAT 16 and 32 Compatible - Graphical User Interface The Most Powerful Hard Drive Utility for Restoring Your Computer to = Normal After a Crash! =20 Want to Know More? Click Here! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 - - - - - - - - - - -=20 $10 OFF only for usenet discussion group subscribers!!=20 =20 When asked for a coupon code during the ordering process, simply enter: COUPON CODE - - - - - - - > w132 < - - - - - - - COUPON CODE It's that easy!!! =20 - - - - - - - - - - -=20 What the Press and Computer Users Like YOU Say About Hard Drive Mechanic = Deluxe: News-Sentinel, Ft. Wayne "Riding to the rescue comes 'Hard Drive Mechanic Deluxe', a powerful = utility made for the PC user who doesn't have a computer science degree = from the Massachusetts Institute of Technology."=20 Rick Leyva, Associated Press (AP) "Hard Drive Mechanic Deluxe can bring considerable peace of mind for a = fairly modest price and could be priceless to the many average PC users = too busy to back up files." Scott Saari, webmaster@phoenixpcug.org "A total recovery from formatting the hard drive in than 30 minutes is = quite impressive. The program's graphical interface is easy to use, even = for a novice." David A. Burke, Coastal Area Users Group, Inc. "There are as many ways a computer can fail as there are people using = them. You would figure someone has thought of this happening and = invented something for it... it's called Hard Drive Mechanic Deluxe." Want to Know More? Click Here! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 - - - - - - - - - - -=20 $10 OFF only for usenet discussion group subscribers!!=20 =20 When asked for a coupon code during the ordering process, simply enter: COUPON CODE - - - - - - - > w132 < - - - - - - - COUPON CODE It's that easy!!! =20 Don't forget to take advantage of this PHENOMENAL offer on an equally = PHENOMENAL software title.=20 Don't suffer from the crashed hard drive blues!! Get Hard Drive Mechanic = Deluxe! https://www.encoresoftware.com/hard_drive_mechanic_deluxe.asp?promo_id=3D= usenet&PRODUCT_ID=3D28 J. Choi Internet Marketing Manager Encore Software, Inc. http://www.encoresoftware.com ------=_NextPart_000_0036_01BEB3F8.02ECFEA0 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable
Hard Drive Mechanic=20 Deluxe
 
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
The Only Utility That Recovers From = Crashes &=20 Warns of Disasters!
- New Advanced = Rescue=20 Algorithms: Recovers automatically from over 98% of software crashes = on drives=20 of any size
- S.M.A.R.T. = Technology: Warns=20 weeks ahead of hard drive mechanical = failure
- FAT 16 and 32=20 Compatible
- Graphical User=20 Interface
The Most Powerful Hard Drive Utility for = Restoring=20 Your Computer to Normal After a Crash!
 
Want to Know More? Click=20 Here!
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
- - - - - - - - - - -
 
$10 OFF only for usenet discussion group = subscribers!!=20
 
When asked for a coupon code during the = ordering=20 process, simply enter:
 
COUPON CODE - - - - - - - >    w132    < - - - - - - - COUPON=20 CODE
 
It's that easy!!!
 
- - - - - - - - - - -
 
What the Press and Computer Users = Like YOU Say=20 About Hard=20 Drive Mechanic Deluxe:
 
News-Sentinel, Ft. Wayne
"Riding to the rescue comes 'Hard=20 Drive Mechanic Deluxe', a powerful utility made for the PC=20 user who doesn't have a computer science degree from = the=20 Massachusetts Institute of Technology."=20
Rick = Leyva, Associated=20 Press (AP)
"Hard=20 Drive Mechanic Deluxe can bring considerable peace of mind for a = fairly=20 modest price and could be priceless to the many average PC users too = busy to=20 back up files."
Scott Saari, webmaster@phoenixpcug.org
"A total recovery = from=20 formatting the hard drive in than 30 minutes is quite impressive. The=20 program's graphical interface is easy to use, even for a=20 novice."
David A. Burke, Coastal Area Users = Group,=20 Inc.
"There are as many = ways a=20 computer can fail as there are people using them. You would figure = someone has=20 thought of this happening and invented something for it... it's called = Hard=20 Drive Mechanic Deluxe."
Want to Know More? Click=20 Here!
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
- - - - - - - - - - -
 
$10 OFF only for usenet discussion group = subscribers!!=20
 
When asked for a coupon code during the ordering = process,=20 simply enter:
 
COUPON CODE - - - - - - - = >   =20 w132    < - - - - - - - COUPON = CODE
 
It's that easy!!!
 
Don't forget to take advantage of this PHENOMENAL offer on = an=20 equally PHENOMENAL software title.
 
Don't suffer from the crashed hard drive = blues!! Get=20 Hard=20 Drive Mechanic Deluxe!
https://www.encoresoftware.co= m/hard_drive_mechanic_deluxe.asp?promo_id=3Dusenet&PRODUCT_ID=3D28
 
J. Choi
Internet Marketing = Manager
Encore Software, Inc.
http://www.encoresoftware.= com
 
------=_NextPart_000_0036_01BEB3F8.02ECFEA0-- From owner-acedb@net.bio.net Fri Jun 11 21:32:00 1999 Path: biosci!pravda.ucr.edu!ihnp4.ucsd.edu!dog.ee.lbl.gov!newsfeed.berkeley.edu!news.algonet.se!algonet!newsfeed.tli.de!newsfeed.nacamar.de!serra.unipi.it!newsfeed.cineca.it!newsfeed.nettuno.it!server-b.cs.interbusiness.it!news.tin.it!not-for-mail From: "tin" Newsgroups: ab.software.developers,alt.collecting.stamps.software,alt.comp.software.easter-eggs,alt.comp.software.financial.peachtree,alt.comp.software.njdm,alt.comp.software.tools,alt.med.software,alt.video.dvd.software,bionet.software,bionet.software.acedb Subject: office 2000 preview cercasi Followup-To: ab.software.developers, alt.collecting.stamps.software, alt.comp.software.easter-eggs, alt.comp.software.financial.peachtree, alt.comp.software.njdm, alt.comp.software.tools, alt.med.software, alt.video.dvd.software, bionet.software, bionet.software.acedb Date: Fri, 11 Jun 1999 23:45:21 +0100 Organization: TIN Lines: 53 Message-ID: <7js05p$m2j$7@nslave1.tin.it> NNTP-Posting-Host: a-pa6-21.tin.it Mime-Version: 1.0 Content-Type: multipart/alternative; boundary="----=_NextPart_000_005A_01BEB464.78131B80" X-Priority: 3 X-MSMail-Priority: Normal X-Newsreader: Microsoft Outlook Express 5.00.2014.211 X-MimeOLE: Produced By Microsoft MimeOLE V5.00.2014.211 Xref: biosci bionet.software:23607 bionet.software.acedb:2400 This is a multi-part message in MIME format. ------=_NextPart_000_005A_01BEB464.78131B80 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable =E8 uscita una versione di office 2000 preview,in italiano, prima della = versione ufficiale, intorno al mese di marzo. ho urgente bisogno di reperire questo cd in originale prima del 18/6/99. Premetto che questo cd non ha nessun valore commerciale ma sono disposto = a pagarlo. Chiunque ne fosse in possesso o mi possa aiutare a reperilo, scriva a = gianfire@lexsystem.it grazie anticipatamente ------=_NextPart_000_005A_01BEB464.78131B80 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable
=E8 uscita una versione di office 2000 preview,in italiano, prima = della=20 versione ufficiale, intorno  al mese di marzo.
 
ho urgente bisogno di reperire questo cd in originale prima del=20 18/6/99.
 
Premetto che questo cd non ha nessun valore commerciale ma sono = disposto a=20 pagarlo.
 
Chiunque ne fosse in possesso o mi possa aiutare a reperilo, scriva = a gianfire@lexsystem.it
 
grazie anticipatamente
------=_NextPart_000_005A_01BEB464.78131B80-- From owner-acedb@net.bio.net Sat Jun 12 09:44:00 1999 Path: biosci!ROCKETMAIL.COM!savthewhitetiger From: savthewhitetiger@ROCKETMAIL.COM Newsgroups: bionet.software.acedb Subject: A gentle invitation Date: 12 Jun 1999 03:44:42 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: <731.578662.504669@smtp.callus4more.net.fr> NNTP-Posting-Host: net.bio.net If the topics of personal peace, spirituality and unconditional love ARE NOT of interest to you, please accept our sincere apology for the errant e-mail and simply click the delete button on your browser to make this message go away. No trash, no recycling, environmentally friendly. If the topics of personal peace, spirituality and unconditional love ARE of interest to you, we invite you to visit our web site at www.peace-works.com . 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From owner-acedb@net.bio.net Sat Jun 12 11:41:00 1999 Path: biosci!newshost.lanl.gov!awabi.library.ucla.edu!128.230.129.106!news.maxwell.syr.edu!news-peer.gip.net!news.gsl.net!gip.net!spring.edu.tw!feeder.seed.net.tw!news.seed.net.tw!not-for-mail From: "win98" Newsgroups: bionet.software.acedb Subject: Macromedia Flash 4.0 Full version download Date: 12 Jun 1999 12:35:56 GMT Organization: SEEDNet News Service Lines: 6 Message-ID: <7jtk7c$rt$1@news.seed.net.tw> NNTP-Posting-Host: hw242-87.dialup.seed.net.tw X-Newsreader: Microsoft Outlook Express 4.72.3110.5 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3110.3 Macromedia Flash 4.0 9145KB Macromedia Director 7 ShockWave Internet Studio http://come.to/sogood From owner-acedb@net.bio.net Mon Jun 14 02:26:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!newsfeed.berkeley.edu!hermes.visi.com!news-out.visi.com!hub1.ispnews.com!cyc12.deja.bcandid.com!nntp1.deja.com!nnrp2.deja.com!nntp2.deja.com!nnrp1.deja.com!not-for-mail From: derose@my-deja.com Newsgroups: bionet.software.acedb Subject: need help with aceperl Date: Mon, 14 Jun 1999 02:23:59 GMT Organization: Deja.com - Share what you know. Learn what you don't. Lines: 49 Message-ID: <7k1p3n$d9t$1@nnrp1.deja.com> NNTP-Posting-Host: 206.29.242.197 X-Article-Creation-Date: Mon Jun 14 02:23:59 1999 GMT X-Http-User-Agent: Mozilla/4.0 (compatible; MSIE 5.0; Windows 95; DigExt) X-Http-Proxy: 1.0 x33.deja.com:80 (Squid/1.1.22) for client 206.29.242.197 Hello Acedb experts. I've attempting to set up a database very similar to the database that Lincoln Stein outlined the the Perl Journal. I've been following his examples from the article, but it's been a struggle. The problem that I'm running into at the moment is connecting to a local database via a cgi script. The majority of the examples Lincoln has all refer to a remote database, but I'm using a local database. my code looks like: # open a local database connection my $db = Ace->connect(-path => '/home/acedb/') || die "Path failed ", Ace->error; The error I receive is: Use of uninitialized value at /usr/lib/perl5/site_perl/Ace/Local.pm line 29. Use of uninitialized value at /usr/lib/perl5/site_perl/Ace/Local.pm line 31. Can't exec "tace": No such file or directory at /usr/lib/perl5/IPC/Open3.pm lin. open3: exec of tace /home/acedb/ failed at /usr/lib/perl5/site_perl/Ace/Local.p1 Use of uninitialized value at /usr/lib/perl5/site_perl/Ace/Local.pm line 61. Path failed Couldn't open database at /home/httpd/cgi-bin/addperson line 6. I'm note sure what uninitialized value on line 29 and 31 that being refered to. Line 29 is: die "-path is not relevant for aceclient, use -host and/or -port" and line 31 is: die "-host and -port are not relevant for tace, use -path" According to all of the documentation that I've been reading, I shouldn't have to set -host and -port, because I'm on a local machine. I did try to set up gifaceserver to see if that would make a difference, but it didn't. If anyone has any idea's, I would sure love to hear them. Thank you Daryl Rose Sent via Deja.com http://www.deja.com/ Share what you know. 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If you already have an on hold system, we can provide you with professional custom recordings. ***************************************************************** Please Remove at: mailto:zulu974@yahoo.com?subject=remove ***************************************************************** From owner-acedb@net.bio.net Wed Jun 16 10:48:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!logbridge.uoregon.edu!dispose.news.demon.net!demon!ayres.ftech.net!news.ftech.net!colt.net!news0.de.colt.net!news-fra1.dfn.de!fu-berlin.de!server1.netnews.ja.net!pegasus.csx.cam.ac.uk!hgmp.mrc.ac.uk!biosci From: mieg@beta.crbm.cnrs-mop.fr (Danielle et jean Thierry-Mieg) Newsgroups: bionet.software.acedb Subject: Re: Xace and DU 4.0E error Date: 16 Jun 1999 12:42:40 +0100 Organization: MRC Human Genome Mapping Project Resource Centre Message-ID: <199906161142.NAA09906@beta.crbm.cnrs-mop.fr> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk X-Trace: niobium.hgmp.mrc.ac.uk 929533361 25040 193.62.192.80 (16 Jun 1999 11:42:41 GMT) X-Complaints-To: news@hgmp.mrc.ac.uk NNTP-Posting-Date: 16 Jun 1999 11:42:41 GMT X-Received: from mserv1.dl.ac.uk (root@mserv1.dl.ac.uk [148.79.160.65]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id MAA15209 for ; Wed, 16 Jun 1999 12:42:38 +0100 (BST) X-Received: from xerxes.crbm.cnrs-mop.fr (root@xerxes.crbm.cnrs-mop.fr [193.49.189.10]) by mserv1.dl.ac.uk with ESMTP id MAA15758 (8.8.8/5.4[ref postmaster@dl.ac.uk] for dl.ac.uk from mieg@beta.crbm.cnrs-mop.fr); Wed, 16 Jun 1999 12:42:47 +0100 (BST) X-Precedence: first-class X-Received: from eta.crbm.cnrs-mop.fr (IDENT:root@eta [193.49.189.67]) by xerxes.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id MAA23137 ; Wed, 16 Jun 1999 12:43:04 +0200 X-Received: from beta.crbm.cnrs-mop.fr (beta.crbm.cnrs-mop.fr [193.49.189.62]) by eta.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id NAA20463 ; Wed, 16 Jun 1999 13:42:31 +0200 X-Received: from (mieg@localhost) by beta.crbm.cnrs-mop.fr (8.9.3/jtpda-5.3.1) id NAA09906 ; Wed, 16 Jun 1999 13:42:31 +0200 (MET DST) X-To: nirav@arl.arizona.edu_no_spam X-Cc: acedb@dl.ac.uk Lines: 16 no idea how to reproduce i doubdt that redownloading from ncbi will help rather you should recompile get the source setenv ACEDB_MACHINE ALPHA_4_OPT make tace xace (you may want to do ln -s wmake/makefile makefile ) run all these commands from the directory just above w1 w2 w3 w4 .. i suspect a library problem with X11 rather than a genuine acedb crash --- From owner-acedb@net.bio.net Thu Jun 17 15:56:00 1999 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newspump.monmouth.com!newspeer.monmouth.com!colt.net!Pollux.Teleglobe.net!server-b.cs.interbusiness.it!none444.yet From: no.email.address.entered@none444.yet Newsgroups: bionet.software.acedb Subject: Mp3 FREE Site www.mediterranei.it/mp3 Date: Thursday, 17 Jun 1999 17:24:03 -0600 Organization: Lines: 3 Message-ID: <17069917.2403@none444.yet> NNTP-Posting-Host: 212.210.253.209 www.mp3.com/greyowl www.mediterranei.it/mp3 Upload your songs for free From owner-acedb@net.bio.net Fri Jun 18 02:57:00 1999 Path: biosci!rutgers!gatech!arclight.uoregon.edu!logbridge.uoregon.edu!newsfeed.amsterdam.nl.net!sun4nl!uunet!ams.uu.net!ffx.uu.net!in5.uu.net!news.ici.net!hotmail.com From: sexbabe70@hotmail.com Newsgroups: bionet.software.acedb,bionet.software.gcg,bionet.software.srs,bionet.software.staden,bionet.software.x-plor Subject: XXX CONTENT 20211 Date: Thursday, 17 Jun 1999 20:45:15 -0600 Organization: Sexbabe 70 Lines: 7 Message-ID: <17069920.4515@hotmail.com> Reply-To: sexbabe70@hotmail.com NNTP-Posting-Host: d-gnaps-269.ici.net Xref: biosci bionet.software.acedb:2412 bionet.software.gcg:3577 bionet.software.srs:1511 bionet.software.staden:973 bionet.software.x-plor:2533 Adults Only! http://3488670202/newsindex.html c8x:AE7b;o From owner-acedb@net.bio.net Fri Jun 18 03:20:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!news.ems.psu.edu!news.cis.ohio-state.edu!nntp.service.ohio-state.edu!not-for-mail From: Wangmao Ge Newsgroups: bionet.software.acedb Subject: acedb:get write access Date: Fri, 18 Jun 1999 00:11:50 +0000 Organization: Ohio State University Lines: 12 Message-ID: <37698EC6.9DA244D4@osu.edu> NNTP-Posting-Host: rb14v-93-187.resnet.ohio-state.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: charm.magnus.acs.ohio-state.edu 929679325 23392 140.254.93.187 (18 Jun 1999 04:15:25 GMT) X-Complaints-To: usenet@charm.magnus.acs.ohio-state.edu NNTP-Posting-Date: 18 Jun 1999 04:15:25 GMT X-Mailer: Mozilla 4.51 [en] (Win98; I) X-Accept-Language: en,zh,zh-TW Dear all, I installed ACEDB from the source and compiled it in the Digital Unix system. The program worked well for a while, but I do not know what is going wrong that leads to the following problem: it freezes when it tries to get write access for me after I click on 'read .ace file'. Anyone knows what might go wrong or what to check? Thanks in advance. Bill From owner-acedb@net.bio.net Fri Jun 18 03:52:00 1999 Path: biosci!PCBOBO.OGS.TRIESTE.IT!wejau48 From: wejau48@PCBOBO.OGS.TRIESTE.IT (Quality Health Services) Newsgroups: bionet.software.acedb Subject: ADV: END STRESS, Insomnia & TMJ - Self Hypnosis Date: 17 Jun 1999 21:52:13 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 142 Sender: daemon@net.bio.net Distribution: world Message-ID: <19990617147UAA29623@itreallyworks.thomson-csf.fr> NNTP-Posting-Host: net.bio.net If you wish to be removed from our list and be excluded from future mailings, please call: 1-800-242-0363 Ext.8157. 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For more information please reply to: mailto:merch2@bigfoot.com?subject=more-info ********************************************************************* ** To be removed reply to mailto:jjmay@dbzmail.com?subject=remove ********************************************************************* ** From owner-acedb@net.bio.net Mon Jun 21 09:33:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!newsfeed.berkeley.edu!dispose.news.demon.net!demon!newspeer.clara.net!news.clara.net!newsfeed.nacamar.de!rz.uni-karlsruhe.de!fu-berlin.de!server1.netnews.ja.net!pegasus.csx.cam.ac.uk!hgmp.mrc.ac.uk!biosci From: mieg@alpha.crbm.cnrs-mop.fr (Danielle et jean Thierry-Mieg) Newsgroups: bionet.software.acedb Subject: Re: acedb:get write access Date: 21 Jun 1999 11:27:27 +0100 Organization: MRC Human Genome Mapping Project Resource Centre Message-ID: <199906211027.MAA03798@alpha.crbm.cnrs-mop.fr> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk X-Trace: niobium.hgmp.mrc.ac.uk 929960848 748 193.62.192.80 (21 Jun 1999 10:27:28 GMT) X-Complaints-To: news@hgmp.mrc.ac.uk NNTP-Posting-Date: 21 Jun 1999 10:27:28 GMT X-Received: from xerxes.crbm.cnrs-mop.fr (IDENT:root@xerxes.crbm.cnrs-mop.fr [193.49.189.10]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id LAA09381 for ; Mon, 21 Jun 1999 11:27:21 +0100 (BST) X-Received: from eta.crbm.cnrs-mop.fr (IDENT:root@eta [193.49.189.67]) by xerxes.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id MAA20095 ; Mon, 21 Jun 1999 12:27:10 +0200 X-Received: from alpha.crbm.cnrs-mop.fr (alpha.crbm.cnrs-mop.fr [193.49.189.71]) by eta.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id MAA27644 ; Mon, 21 Jun 1999 12:27:19 +0200 X-Received: from (mieg@localhost) by alpha.crbm.cnrs-mop.fr (8.9.3/jtpda-5.3.1) id MAA03798 ; Mon, 21 Jun 1999 12:27:18 +0200 (MET DST) X-To: ge.10@osu.edu X-Cc: acedb@hgmp.mrc.ac.uk Lines: 15 it freezes when it tries to get write access for me after I click on 'read .ace file'. at that point acedb tries to nfs-lock the database it is possible that you unix kernel is not installed to support locking, this is more likelly if the disk is not local to the machine and garanteed not to work on a mixed Linux/dec-alpha system please try to uncomment the word // NOLOCK by removing the // in the file wspec/passwd.wrm --- From owner-acedb@net.bio.net Mon Jun 21 13:54:00 1999 Path: biosci!UCSD.EDU!dsmith From: dsmith@UCSD.EDU (Doug Smith) Newsgroups: bionet.software.acedb Subject: second "sequence" Class for cDNA Date: 21 Jun 1999 07:54:45 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 42 Sender: daemon@net.bio.net Distribution: world Message-ID: <199906211448.HAA21135@biomail.ucsd.edu> NNTP-Posting-Host: net.bio.net I am trying to set up a second sequence class for cDNA sequences, a class called "cDNA". I used the basic Sequence class model for the cDNA class, modifying tags appropriately. I also added the following to the Options.wrm file: _VcDNA -V -D FMAP I can read the data in fine as a .ace file. These data have no statements referring to the Sequence class. However, the DNA sequence is added as "Sequence" class data. The DNA sequence data are also included in the cDNA class object and will display graphically, but the comments and reference info from the cDNA object does not display on the graphic. The only information displayed on the graphic is the information from the Sequence class object. Further, although the cDNA object shows up as a bold object in the Keyset window, it is not hypertext linked, although the cDNA object can be displayed using the "Show as Text" button. Anyone have any idea what I am doing wrong? Perhaps DNA objects are linked intrinsically to the Sequence class, and I can't do what I am trying to do? Perhaps there is a better way to do what I am trying to do anyway (have 2 classes of sequence objects, one specifically for cDNA sequences) ? Thanks -Doug Doug Smith, Professor of Biology .... dsmith@ucsd.edu Department of Biology, 0116; UCSD; La Jolla CA 92093 phone: 619-534-2620 FAX: 619-534-7108 http://www-biology.ucsd.edu/others/dsmith/dnasys.html From owner-acedb@net.bio.net Mon Jun 21 14:48:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!newsfeed.nacamar.de!fu-berlin.de!server1.netnews.ja.net!hgmp.mrc.ac.uk!biosci From: mieg@alpha.crbm.cnrs-mop.fr (Danielle et jean Thierry-Mieg) Newsgroups: bionet.software.acedb Subject: cdna Date: 21 Jun 1999 16:42:53 +0100 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 23 Message-ID: <199906211542.RAA04362@alpha.crbm.cnrs-mop.fr> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk X-Trace: niobium.hgmp.mrc.ac.uk 929979773 4974 193.62.192.80 (21 Jun 1999 15:42:53 GMT) X-Complaints-To: news@hgmp.mrc.ac.uk NNTP-Posting-Date: 21 Jun 1999 15:42:53 GMT X-Received: from mserv1.dl.ac.uk (root@mserv1.dl.ac.uk [148.79.160.65]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id QAA07262 for ; Mon, 21 Jun 1999 16:42:50 +0100 (BST) X-Received: from xerxes.crbm.cnrs-mop.fr (root@xerxes.crbm.cnrs-mop.fr [193.49.189.10]) by mserv1.dl.ac.uk with ESMTP id QAA27308 (8.8.8/5.4[ref postmaster@dl.ac.uk] for dl.ac.uk from mieg@alpha.crbm.cnrs-mop.fr); Mon, 21 Jun 1999 16:42:56 +0100 (BST) X-Precedence: first-class X-Received: from eta.crbm.cnrs-mop.fr (IDENT:root@eta [193.49.189.67]) by xerxes.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id RAA22668 ; Mon, 21 Jun 1999 17:42:38 +0200 X-Received: from alpha.crbm.cnrs-mop.fr (alpha.crbm.cnrs-mop.fr [193.49.189.71]) by eta.crbm.cnrs-mop.fr (8.9.1a/jtpda-5.3.1) with ESMTP id RAA29052 ; Mon, 21 Jun 1999 17:42:47 +0200 X-Received: from (mieg@localhost) by alpha.crbm.cnrs-mop.fr (8.9.3/jtpda-5.3.1) id RAA04362 ; Mon, 21 Jun 1999 17:42:47 +0200 (MET DST) X-To: acedb@dl.ac.uk, dsmith@UCSD.EDU sorry there is a rigidity in the display code you cannot do that what you want to do is have a model ?Sequence DNA UNIQUE ?DNA UNIQUE Int cDNA and then 2 subclasses Class cDNA is_a_subclass_of Sequence Filter cDNA Class otherSequence is_a_subclass_of Sequence Filter "NOT cDNA" --- From owner-acedb@net.bio.net Tue Jun 22 20:35:00 1999 Path: biosci!BCM.TMC.EDU!rsinha From: rsinha@BCM.TMC.EDU (Raghu Sinha) Newsgroups: bionet.software.acedb Subject: Searching for a software Date: 22 Jun 1999 14:35:40 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 4 Sender: daemon@net.bio.net Distribution: world Message-ID: <3.0.5.32.19990622153926.00951ea0@mail.bcm.tmc.edu> NNTP-Posting-Host: net.bio.net Looking for a chemdraw software. If anyone could tell me where I can download this program? Thanks, Raghu Sinha From owner-acedb@net.bio.net Wed Jun 23 05:39:00 1999 Path: biosci!news.stanford.edu!newsfeed.stanford.edu!news-feed.inet.tele.dk!bofh.vszbr.cz!newsfeed.nacamar.de!newsfeed.nacamar.de!fu-berlin.de!server1.netnews.ja.net!hgmp.mrc.ac.uk!biosci From: Guenther.Ludwig@lds-gmbh.de (Guenther Ludwig) Newsgroups: bionet.software.acedb Subject: Re: Searching for a software Date: 23 Jun 1999 07:33:37 +0100 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 17 Message-ID: <19990623.6325920@W98-GuentherL.lds.de> References: <3.0.5.32.19990622153926.00951ea0@mail.bcm.tmc.edu> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Trace: niobium.hgmp.mrc.ac.uk 930119617 19549 193.62.192.80 (23 Jun 1999 06:33:37 GMT) X-Complaints-To: news@hgmp.mrc.ac.uk NNTP-Posting-Date: 23 Jun 1999 06:33:37 GMT X-Received: from comm_server.lds-gmbh.de (mail.lds-gmbh.de [62.132.38.113]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id HAA27893 for ; Wed, 23 Jun 1999 07:33:23 +0100 (BST) X-Received: from W98-GuentherL.lds.de (W95-GuentherL.lds.de [200.0.0.213]) by comm_server.lds-gmbh.de with SMTP (Microsoft Exchange Internet Mail Service Version 5.5.1960.3) id NDM82WXQ; Wed, 23 Jun 1999 08:37:41 +0200 X-To: rsinha@BCM.TMC.EDU (Raghu Sinha), acedb@hgmp.mrc.ac.uk X-In-Reply-To: <3.0.5.32.19990622153926.00951ea0@mail.bcm.tmc.edu> X-Mailer: Mozilla/3.0 (compatible; StarOffice/5.1; Win32) X-Priority: 3 (Normal) X-MIME-Autoconverted: from quoted-printable to 8bit by hgmp.mrc.ac.uk id HAA27900 Give ISIS/Draw ( http://www.mdli.com ) a chance. Nice program with possibility to save your work - even with the trial version. >>>>>>>>>>>>>>>>>> Ursprüngliche Nachricht <<<<<<<<<<<<<<<<<< Am 22.06.99, 23:35:40,