HDTenEightyP/NetNews huggingface dataset:
From: harper@convex.csc.FI (Rob Harper)
Newsgroups: bit.listserv.info-gcg
Subject: Re: GCG Unix shells?
Date: 5 Oct 92 14:42:09 GMT
Organization: Finnish Academic and Research Network Project - FUNET

In <9210051342.AA11028@relay.fccc.edu> "Frank J. Manion" <manion@RELAY.FCCC.EDU> writes:

>George Gutman writes:
>I have the BLASTMAIL script running properly again, and intend to fix-up
>DBMAIL this week. As far as FAMAIL goes, I'll get it working when I find a
>new FASTA server site.

I would heartily recommend the MAILFASTA script from Thon de Boer
I have it running on our Convex, and it allows you to do BLAST searches
from NCBI or FASTA searches from Japan. It also has BLOCKS and GRAIL
built into it and it will do searches on the NCBI TFD database. It has
nearly thirty different options built into the script. You need to have
Don Gilbert's READSEQ installed, and then the script will take the GCG
sequence file and convert it to the suitable format for the different
servers. BLAST turn around to Finland is about 30 mins or so and FASTA
to JAPAN comes in after about a couple of hours.

I posted the SHAR file to bionet.software.sources a few weeks ago.
If you missed it then you can pick up the source from nic.funet.fi
via anonymous ftp from the /pub/sci/molbio/unix directory.

Get it. It is good.
--
 ~ Rob Harper                    ~ E-mail:          harper@convex.csc.fi    
 ~ Finnish State Computer Centre ~ Molbio/software: harper@nic.funet.fi
 ~ P.O. Box 40                   ~ Telephone:       +358 0 457 2076
 ~ SF-02101 Espoo Finland        ~ Fax:             +358 0 457 2302
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Via:      UK.AC.BHAM;  5 OCT 92 11:45:05 BST
Via:      uk.ac.birmingham.computer-centre.vax1; Mon, 5 Oct 1992 10:41:02 +0000
Newsgroups: bit.listserv.info-gcg
Date:         Mon, 5 Oct 1992 10:48:00 LCL
Reply-To:     BROWNNL@VAX1.COMPUTER-CENTRE.BIRMINGHAM.AC.UK
              <INFO-GCG@UTORONTO.BITNET>
From:         Nigel Brown <BROWNNL@VAX1.COMPUTER-CENTRE.BIRMINGHAM.AC.UK>
Subject:      Re: BIOLOGICAL TRANSMUTATIONS
Comments: To: INFO-GCG%EARN.UTORONTO@BIRMINGHAM.AC.UK

In article <01GPHHU1HWBW001YDU@cnsvax.uwec.edu>, "NAME 'Robert E. McElwaine'"
 <MCELWRE%UWEC.BITNET@EDU.VT.CC.VTVM2> writes:
>                             BIOLOGICAL TRANSMUTATIONS
>
>                A very simple experiment can demonstrate (PROVE) the
>           FACT of "BIOLOGICAL TRANSMUTATIONS" (reactions like Mg + O
>           --> Ca, Si + C --> Ca, K + H --> Ca, N2 --> CO, etc.), as
>           described in the BOOK "Biological Transmutations" by Louis
>           Kervran, [1972 Edition is BEST.], and in Chapter 17 of the
>           book "THE SECRET LIFE OF PLANTS" [see Footnote] by Peter
>           Tompkins and Christopher Bird, 1973:
>
>                (1) Obtain a good sample of plant seeds, all of the same
>                    kind.  [Some kinds might work better that others.]
>
>                (2) Divide the sample into two groups of equal weight
>                    and number.
>
>                (3) Sprout one group in distilled water on filter paper
>                    for three or four weeks.
>
>                (4) Separately incinerate both groups.
>
>                (5) Weigh the residue from each group.  [The residue of
>                    the sprouted group will usually weigh at least
>                    SEVERAL PERCENT MORE than the other group.]
>
>                (6) Analyze quantitatively the residue of each group for
>                    mineral content.  [Some of the mineral atoms of the
>                    sprouted group have been TRANSMUTED into heavier
>                    mineral elements by FUSING with atoms of oxygen,
>                    hydrogen, carbon, nitrogen, etc..]
>
>	(STUFF DELETED)
>
>                                    Robert E. McElwaine
>                                    B.S., Physics and Astronomy, UW-EC
--

I don't know what this was doing in the INFO-GCG list, and I may be delayed in
my response to the posting, but I am glad to be reminded - just before I give
my first 1st-year undergaduate lecture of the year - that there is such a thing
as scientific method and how important it is to apply it.

-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-
Nigel Brown                         Tel: +44 21 414-6556
School of Biological Sciences       Fax: +44 21 414-6557
University of Birmingham            E-mail: N.L.Brown@UK.AC.BHAM  (UK Only)
Edgbaston                                   N.L.Brown@BHAM.AC.UK  (Elsewhere)
Birmingham B15 2TT
U.K.
-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-/-
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Newsgroups: bit.listserv.info-gcg
Date:         Sun, 4 Oct 1992 19:02:45 -0400
Reply-To:     Fredj Tekaia <tekaia@PASTEUR.FR>
              <INFO-GCG@UTORONTO.BITNET>
From:         Fredj Tekaia <tekaia@PASTEUR.FR>
Subject:      RE: GCG Unix shells?
Comments: To: info-gcg@utoronto.bitnet

 George A. Gutman writes:

> We are beta-testing a UNIX port of GCG on a Convex, and would like
> to find ways to broaden our user base.

   We just begun at the Institut Pasteur, using a UNIX version of GCG
 on a convex. The port of this version was done by Don North at CONVEX
 (dnorth@convex.com).

>  Are there any UNIX shells
> available for batch submissions, or for easier-to-use menu-driven front
> ends?  Steve Clarks' VMS shells have been very useful, but he's not
> in that business anymore.

   Karl-Heinz Glatting from DKFZ (tech1@cvx12.dkfz-heidelberg.de) has a
 very valuable experience with GCG unix version on CONVEX. He did at my
 knwoledge the fisrt port of GCG on CONVEX unix. He has also written an
 easy to use menu-driven front end.

> George
>
> *****************************************************************
> * George A. Gutman                                              *
> * Department of Microbiology            Tel:(714)856-6593       *
> *          and Molecular Genetics       FAX:(714)856-8598       *
> * University of California             BITNET: GAGUTMAN@UCI     *
> * Irvine CA 92717                    INTERNET: GAGUTMAN@UCI.EDU *
> *****************************************************************

  Hope this helps.

Fredj Tekaia
Service d'Informatique Scientifique
Institut Pasteur
tekaia@pasteur.fr
From: keenan@HAL.HAHNEMANN.EDU (Paul Keenan,
              Library Database Administrator)
Newsgroups: bit.listserv.info-gcg
Subject: VMS front-end menus
Date: 6 Oct 92 15:03:39 GMT
              <INFO-GCG@UTORONTO.BITNET>
Reply-To: "Paul Keenan,
              Library Database Administrator" <keenan@HAL.HAHNEMANN.EDU>
Comments: Gated by NETNEWS@AUVM.AMERICAN.EDU
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Comments: To: info-gcg@utoronto.bitnet

I've read several references to Steve Clark's DCL menu procedures for GCG.
Can anyone tell me where I could obtain copies via FTP?  We're a new GCG site
and this is something I'm very interested in.

Thanks in advance,

Paul Keenan
Database Administrator
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Newsgroups: bit.listserv.info-gcg
Date:         Mon, 5 Oct 1992 17:08:12 -0500
Reply-To:     Dan Davison <Davison@UH.EDU>
              <INFO-GCG@UTORONTO.BITNET>
From:         Dan Davison <Davison@UH.EDU>
Subject:      RE: GCG Unix shells? (fwd)

INFO-GCG%UTORONTO.BITNET@Post-Office.UH.EDU said:
> I posted the SHAR file to bionet.software.sources a few weeks ago.
> If you missed it then you can pick up the source from nic.funet.fi
> via anonymous ftp from the /pub/sci/molbio/unix directory.

As a reminder, all postings to bionet.software.sources are archived
immediately onto the UH Gene-Server.  There were several updates to
MAILFASTA and the latest is in "mailfasta301.shar"

To get the software by e-mail, send the Subject: line

        send unix mailfasta301.shar


to gene-server@bchs.uh.edu (gene-server%bchs.uh.edu@CUNYVM from
bitnet).  For more info on the UH Gene-Server, send the word "HELP" to
the same address.

dan
ps don't combine your SEND command with the HELP command...the
software figures if you want HELP it shouldn't be sending you
anything!

--
dr. dan davison/dept. of biochemical and biophysical sciences/univ. of
Houston/4800 Calhoun/Houston,TX 77204-5934/davison@uh.edu/DAVISON@UHOU

-----RIP Isaac Asimov 1920-1992     I'll miss him --------------------

Disclaimer: As always, I speak only for myself, and, usually, only to
myself.
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Newsgroups: bit.listserv.info-gcg
Date:         Mon, 5 Oct 1992 10:54:14 SST
Reply-To:     "(Dr Tan Tin Wee)" <bchtantw@NUSCC.NUS.SG>
              <INFO-GCG@UTORONTO.BITNET>
From:         "(Dr Tan Tin Wee)" <bchtantw@NUSCC.NUS.SG>
Subject:      Re: GCG Unix shells?
Comments: To: GGUTMAN%UCIVMSC.BITNET@nusvm.nus.sg,
              info-gcg%utoronto.BITNET@nusvm.nus.sg
Comments: cc: "(Kiong Beng Kee)" <isckbk@nuscc.nus.sg>
              at Oct 2, 92 2:33 pm

George Gutman writes:
> We are beta-testing a UNIX port of GCG on a Convex, and would like
> to find ways to broaden our user base.  Are there any UNIX shells
> available for batch submissions, or for easier-to-use menu-driven front
> ends?  Steve Clarks' VMS shells have been very useful, but he's not
> in that business anymore.

Rienhard Doelz has a menu system going at his site. You might want to
contact him, unless he's already replied to you.

We are running a simple curses/termcap menu interface based on a modification
of the HYTELNET hypertext-like browser.  (anonymous ftp from nuscc.nus.sg
at /pub/biocomp/gcgmenu.tar.Z) A paper in CABIOS describing it is in press.
It's got a simple classification of programs according to that in the
GCG manual, plus unix command utilities incorporated within the interface.
Invokation of the GCG programs is like the GCG navigator vn 7.1
using the "-check" parameter.  The limitations, of course, are obvious.

It is written in C and we know it runs on DEC Ultrix 4.2. The newer
version described below has been tested on DEC, Sun and AIX but
it's not ready yet.  Sorry but we don't have a Convex to test it out.
It does use some unix Bourne shell scripts so you might have to look
at that if you want to try it out.

Consequently, this will be superseded by a newer version which we
are currently working on.  This will include a common interface to
as many packages/programs including public domain software etc we can
get hold of.  We have done it for PHYLIP and are progressing to do
up the links between the menu program and the >70 programs of GCG
(which is a large number of programs!)  We hope that it will solve
some of the problems our users have encountered with the earlier
version, eg. where is my input file? and which directory has the output
gone? oops i have entered the wrong parameter and can i get back to
alter it or do i have to go through the whole sequence of parameter input
again? I have got it in the wrong format.. what do i do? etc.

The interface to other software is needed because there are some nice
things that other programs can do which folks want to do but are not on
GCG.

Hope this is useful.

Tin-Wee.

--
    Tin-Wee TAN                        /  INTERNET: bchtantw@nuscc.nus.sg
    Dept of Biochemistry               /  BITNET:   BCHTANTW@NUSVM
    National University of Singapore   /  Tel:      (65)-772-3678
    Singapore 0511                     /  Fax:      (65)-779-1453
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X-Mts: smtp
Newsgroups: bit.listserv.info-gcg
Date:         Mon, 5 Oct 1992 09:42:24 -0400
Reply-To:     "Frank J. Manion" <manion@RELAY.FCCC.EDU>
              <INFO-GCG@UTORONTO.BITNET>
From:         "Frank J. Manion" <manion@RELAY.FCCC.EDU>
Subject:      Re: GCG Unix shells?
Comments: To: GGUTMAN%UCIVMSC.BitNet@pucc.princeton.edu
Comments: cc: Multiple recipients of list INFO-GCG
              <INFO-GCG%UTORONTO.BitNet@pucc.princeton.edu>
              02 Oct 92 14:33:00 PDT." <01GPHHDE539S95MWZ2@fccc.edu>

George Gutman writes:
>We are beta-testing a UNIX port of GCG on a Convex, and would like
>to find ways to broaden our user base.  Are there any UNIX shells
>available for batch submissions, or for easier-to-use menu-driven front
>ends?  Steve Clarks' VMS shells have been very useful, but he's not
>in that business anymore.

I have had the rudimentry shells FAMAIL, BLASTMAIL and DBMAIL runing on
Ultrix 4.2 for some months now. The scripts are heavily based on the VMS
command proceedures of Steven Clark. Unfortunately the shutdown of the server
at intellegenetics has necessitated some changes to the scripts. I beleive that
I have the BLASTMAIL script running properly again, and intend to fix-up
DBMAIL this week. As far as FAMAIL goes, I'll get it working when I find a
new FASTA server site.

These shells are untested on SGI and SUN implementations of GCG. If there is
intrest, I'll be happy to post them to the list, or place them on the IUBIO
archive site. A caveat is that there is next to no documentation on them, as
they are largely direct ports of Clark scripts.

++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Frank J. Manion
Manager of Systems & Applications
The Fox Chase Cancer Center
Research Computing Services                              Phone: 215-728-3660
7701 Burholme Avenue                                     FAX:   215-728-2513
Philadelphia, PA  19111                         internet: FJ_Manion@fccc.edu
USA
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
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Original_To:  BITNET%"info-gcg@utoronto"
Original_cc:  MARK
Newsgroups: bit.listserv.info-gcg
Date:         Mon, 5 Oct 1992 07:22:00 EST
Reply-To:     "T. Mark Reboul" <MARK@CUCCFA.BITNET>
              <INFO-GCG@UTORONTO.BITNET>
From:         "T. Mark Reboul" <MARK@CUCCFA.BITNET>
Subject:      User-interface shells for Unix GCG

George Gutman asks if there are any Unix shells available for assisting
GCG users on Unix systems....

George, I don't know the answer to that question, but I do know one
other piece of information which might be useful in your case, dealing
with a Convex system: Convex offers a product which can give a user a
VMS/DCL-style interface to the system. (In other words, it covers up
the Unix.) In general, you wouldn't want to hide the true system. But
for the short run, if you want to continue running the DCL procedures
you know and love, you might consider getting that Convex optional
product. I think it's called COVUE or COVUEshell, or something like
that.

Mark Reboul
Columbia University Cancer Center Computing Facility
mark@cuccfa.ccc.columbia.edu
From: francis@monod.Biol.McGill.CA (Francis Ouellette)
Newsgroups: bit.listserv.info-gcg
Subject: getting info on how to get the GCG package (was SRS for unix?)
Date: 4 Oct 92 15:48:13 GMT
Organization: McGill University

nakai@PAL.NIBB.AC.JP (Kenta Nakai) writes:

>I am very interested in obtaining the Unix version of GCG.
>I should be very appreciated if someone kindly tell me where
>to contact to get more information.


the easiest way is probably to email this address:

help@gcg.com

regards,

francis

--
| B.F. Francis Ouellette  
| manager, yeast chromosome I project
| dept of biology, McGill university, Montreal, Qc, Canada
| francis@monod.biol.mcgill.ca
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Original_To:  JNET%"info-gcg@utoronto"
Newsgroups: bit.listserv.info-gcg
Date:         Tue, 6 Oct 1992 10:42:00 PST
Reply-To:     CLARK@SALK.BITNET
              <INFO-GCG@UTORONTO.BITNET>
From:         CLARK@SALK.BITNET
Subject:      Re: VMS front-end menus

/I've read several references to Steve Clark's DCL menu procedures for GCG.
/Can anyone tell me where I could obtain copies via FTP?  We're a new GCG site
/and this is something I'm very interested in.
/
/Paul Keenan
/Database Administrator

        There are two kinds of DCL shells to help with the GCG programs. One
set it to help users do database searches in batch mode. Through a series
of menus, the user is provided with a series of choices to execute the
search (which database, what word size, etc), then a command procedure is
constructed from the user's responses and submitted to the batch queue.
Shells are available for the GCG programs Fasta, Wordsearch/segments,
Stringsearch, Find(patterns) and Compare/Dotplot.

        The second set of shells was for accessing database servers
provided by GenBank by email. The user interface was the same as the other
shells (completely menu driven), but a mail message was constructed and
sent to the relevant address at GenBank. Various shells would submit a
search to the Fasta or BLAST servers, or request the retrieval of a
sequence. As of October 1 when the GenBank contract moved from
Intelligenetics to the NCBI, these shells no longer work because the
servers have changed, as has been discussed recently in these newsgroups. I
haven't made any modifications to these shells to reflect the GenBank
changes, but I'm sure others must have.

        All these shells can be found at ftp.bio.indiana.edu in the
directories /molbio/gcg and /molbio/vax, and at evolution.bchs.uh.edu in
the directory /pub/gene-server/vms. They are also available from the EMBL
archive.

        I hope this helps.


Steve Clark

clark@salk-sc2.sdsc.edu  (Internet)
clark@salk               (Bitnet)
Newsgroups: bit.listserv.mednews
From: vftim@finance.rostov-na-donu.su (V.F. Timofeyev)
Subject: Electronic remedy-store from Russia
Reply-To: vftim@finance.rostov-na-donu.su
Organization: Rostov School of Finance
Date: Thu, 01 Oct 92 19:44:24 +0300

                "Electronic remedy-store."

    We suggest:  Production and sale of the medical therapeutic.

    Our conception: We have the unique approach to set/determine
physical influence (electromagnetic field,acoustic and optical
radiation) significant parameters causing therapeutic effects
of a great number of medicines for vascular system diseases and
for autoimmune and oncological pathology.

    This is to some degree "ELECTRONIC REMEDY-STORE" rival for
pharmacological approach in practice.
    At present two specific methods are on offer out potential
partner: 1.Method to alleviate tachyarrythmia.
         2.Method for brain vascular tone reduction.
    We are ready to provide sufficient informaion or these to
allow convertion in the shortest term (4-6 months) to the serial
production of portable in expensive devices applyiry for the
afore-said methods.
    These devices are notable for non-invasion and usable for
many times as principally distinct from the used pharmaceutic
remedies.
    To demonstrate visually the efficiency and effectiveness of
the approach we cite statistically processed data and original
records of electrocardiograms (ECG) and rheoencephalograms (REG).

     If you are concerned with what we do,if you are look into
the world medicine future:
     Call us!  L.P. Shipilov
     Write us! Firm"ANION-MT"
               33A/47,October,Avenue,apt.#118
               Post/box 2225
               Rostov-on-Don,Russia,344038
               tel:+7-863-2-38-6469 w
                           32-3723  h
               E-mail: vftim@finance.rostov-na-donu.su
                       (For Shipilov)

                We could meet with you
    at "Hospital-92" Exibition in Sankt-Peterburg
     early from 9 to 11 October 1992 at 12:00AM
 Meeting place - a stand of "Krasnogvardejets" Company




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Newsgroups: bit.listserv.candle-l
Date:         Mon, 28 Sep 1992 08:24:39 EDT
Comments:     Converted from PROFS to RFC822 format by PUMP V2.2X
From:         David Ehresman <DEEHRE01@ULKYVM.LOUISVILLE.EDU>
Subject:      Omegamon II for MVS with ACF2

Thanks for the response, but that does not appear to be our problem.
We also do not use EXTERNAL=YES for command checking, but just use
ACF2 for password checking and level locking.  It works ok when
we sign on directly to Omegamon II.  But when we try to access
Omegamon II from Status Monitor, we get a VTP message that is the
same as if one enters a blank password when signing on directly
to Omegamon II.  So far, Candle support has not been able to
figure out what is going on, but they think there is a problem
in the Status Monitor dialogs.

***************************************************************
*David Ehresman, University of Louisville, (502) 588-5224
*Bitnet:DEEHRE01@ULKYVM Internet:DEEHRE01@ULKYVM.LOUISVILLE.EDU
*(Standard network disclaimer)
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Date:         Mon, 28 Sep 1992 17:01:00 BSC
Reply-To:     gomide@BRFAPQ.BITNET
Comments:     @FAPQ.FAPESP.BR - @FAPQ%FPSP.HEPNET - @BRFAPQ.BITNET - .BR gateway
Comments:     Warning -- original Sender: tag was GOMIDE@BRFAPQ
From:         gomide@FPSP.FAPESP.BR
Subject:      Apologies re: InterMeta course

PLEASE DO NOT SEND MONEY !
It is with regret that I perform this task. Dr. Gelson V. Gomes. a
professor of the University of Parana, Brazil, has exceeded this
privileges and announced a eletronic course:

> ____________________________________________________________
>        Mastering INTERNET Tools, Seizing METANET Power -
>                      The InterMeta Course
> ____________________________________________________________

I must apologize for this flagrant breach of network etiquette. Please
be aware that Dr. Gelson had no right to do so, since this is against
the rules of our ANSP network, and also against the Bitnet rules.
PLEASE DO NOT SEND MONEY!
I will not discuss what his motivations were. But his account has been
revoked, and there will be no such course through my network.

Please write by normal mail, to:
-> Gelson V. Gomes
-> 358, R. Alvaro Andrade - ap.1201
-> Curitiba PR BRAZIL 80610-240
to get more information on his objectives. He may want to give the
course by normal mail.  :-)

With regards,
--
Alberto Courrege Gomide | Fundacao de Amparo `a Pesquisa - (11)831-3357
Software Supervisor     | Rua Pio XI, 1500 - CEP 05468-901 - Sao Paulo
<gomide@fapq.fapesp.br> | FAX (11)261-4167 Telex (11)82014 - Brazil
(ACG8) - .BR Domain Technical Contact. |
--
From: MCMASTER@LSTC2VM.stortek.com (Jim McMaster)
Newsgroups: bit.listserv.xedit-l
Subject: Request information on XEDIT implementations
Date: 28 Sep 92 22:57:03 GMT
Organization: StorageTek SW Engineering

I am looking for information on XEDIT implementations for other
platforms.  I already know about KEDIT for MS-DOS and uniXEDIT for
UNIX.  Any information would be helpful, most especially the names,
addresses and phone numbers of the vendors.
 
Thank you very much in advance.  I would prefer responses by e-mail to
avoid cluttering the list.  If anyone else is interest, I will post a
summary of any information I find.
 
Jim McMaster
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Newsgroups: bit.listserv.xedit-l
Date:         Tue, 6 Oct 1992 16:33:52 EDT
From:         kdlutes@UALR.EDU
Subject:      RE: 255 chars in xedit
Comments: To: XEDIT-L%UGA.bitnet@KSUVM.KSU.EDU

OK, OK, OK.  I was wrong about 255 being the longest record XEDIT could edit.
I spoke before I really thought about it.  What I was thinking of was I could
never get EXECIO (in a REXX macro) to read a record larger than 255 characters.

Is this possible?
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