hi. 

When I download with windows via mail box.... I get a corrupt file ....

it's OK with wget command


thanks for your help


  
 
VOISIN Greg. 
Etudiant au Doctorat en Bioinformatique 
Université de Montreal
Centre de recherche du CHUM. 
Institut de Recherche en Immunologie et Cancérologie




----- Message d'origine ----
De : Jack Zhu <zhujack@mail.nih.gov>
À : gregory voisin <voisingreg@yahoo.fr>
Cc : Sean Davis <sdavis2@mail.nih.gov>
Envoyé le : Vendredi, 19 Septembre 2008, 9h35mn 49s
Objet : Re: Re : [BioC] GEOMETADB: unable to connect to 'meltzerlab.nci.nih.gov' on port 80 and GEOmetadb.sqlite.gz file

Hi Gregory,

Sorry for the inconvenience. I tried gunzip in my computer and it seems working in my computer (please see below). I wonder if that could be because of different version of gunzip or OS.  I have Mac OS X tiger and gunzip 1.2.4. 

-----------------
zhujack:~/Desktop/temp zhujack$  wget http://gbnci.abcc.ncifcrf.gov/geo/GEOmetadb.sqlite.gz                                              
--09:03:57--  http://gbnci.abcc.ncifcrf.gov/geo/GEOmetadb.sqlite.gz
           => `GEOmetadb.sqlite.gz'
Resolving gbnci.abcc.ncifcrf.gov... 129.43.1.169
Connecting to gbnci.abcc.ncifcrf.gov|129.43.1.169|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 44,926,735 (43M) [text/plain]

100%[==============================================================================================>] 44,926,735    12.14M/s    ETA 00:00

09:04:01 (11.72 MB/s) - `GEOmetadb.sqlite.gz' saved [44926735/44926735]

zhujack:~/Desktop/temp zhujack$ gunzip  GEOmetadb.sqlite.gz

zhujack:~/Desktop/temp zhujack$ gunzip -V
gunzip 1.2.4 (18 Aug 93)
Compilation options:
DIRENT UTIME STDC_HEADERS HAVE_UNISTD_H ASMV 

zhujack:~/Desktop/temp zhujack$ sqlite3 GEOmetadb.sqlite 
SQLite version 3.1.3
Enter ".help" for instructions

sqlite> .tables
gds                geodb_column_desc  gse_gpl            metaInfo         
gds_subset         gpl                gse_gsm            sMatrix          
geoConvert         gse                gsm              

---------------

Please let me know if you still have problem or find a solution.  Thanks. 

Jack 




On 9/19/08 3:48 AM, "Sean Davis" <sdavis2@mail.nih.gov> wrote:

> Looks like there is a problem with the download.  Could you take a quick look 
> when you have a chance? Thanks, Sean ---------- Forwarded message 
> ---------- From: gregory voisin <voisingreg@yahoo.fr> Date: Thu, Sep 18, 2008 
> at 8:35 PM Subject: Re : [BioC] GEOMETADB: unable to connect 
> to 'meltzerlab.nci.nih.gov' on port 80 and GEOmetadb.sqlite.gz file To: Sean 
> Davis <sdavis2@mail.nih.gov> Hi  sean , I'm sorry to come back... but I want 
> to open your file gunzip GEOmetadb.sqlite.gz gunzip: GEOmetadb.sqlite.gz: 
> not in gzip format is is possible to use getSQLiteFile( arg : local 
> path)? Thanks for your help VOISIN Greg. Etudiant au Doctorat en 
> Bioinformatique Université de Montreal Centre de recherche du CHUM. Institut 
> de Recherche en Immunologie et Cancérologie ----- Message d'origine ---- De 
> : Sean Davis <sdavis2@mail.nih.gov> À : gregory voisin 
> <voisingreg@yahoo.fr> Cc : bioconductor 
> <bioconductor@stat.math.ethz.ch> Envoyé le : Jeudi, 18 Septembre 2008, 18h14mn 
> 18s Objet : Re: [BioC] GEOMETADB: unable to connect 
> to 'meltzerlab.nci.nih.gov' on port 80 and GEOmetadb.sqlite.gz file On Thu, 
> Sep 18, 2008 at 6:03 PM, gregory voisin <voisingreg@yahoo.fr> wrote: > Hi > I 
> try use GEOmetadb... but since 2 weeks always the same problem :unable to 
> connect to 'meltzerlab.nci.nih.gov' on port 80. > > I have read the Sean's 
> answer  on the list... > > If someone has the file : GEOmetadb.sqlite.gz . Is 
> it possible that this file is available ....by ftp for exemple....I appreciate 
> a lot... > > > thanks for your help > Sorry to all.  We are still working to 
> get our server back online.  We are using a backup right now and the url for 
> the file is: http://gbnci.abcc.ncifcrf.gov/geo/GEOmetadb.sqlite.gz Thanks 
> for the patience. Sean 

-- 
Yuelin (Jack) Zhu

NIH/NCI/CCR/Genetics Branch
Tel: (301)496-4527
FAX:   (301) 402-3241
E-mail: zhujack@mail.nih.gov
Web: http://meltzerlab.nci.nih.gov/


      
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