Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-16 Thread Martin Morgan
In r69089 (R-devel) and 69090 (R-3-2-branch) the wininet ftp download method 
tries EPSV / PASV first. Success requires that the client (user) be able to 
open outgoing unprivileged ports, which will usually be the case. Proxies and 
so on should be handled by the OS and virtualization layer. Reports to the 
contrary welcome... Martin

- Original Message -
 Hi David,
 
 - Original Message -
  From: David Smith david...@microsoft.com
  To: Dan Tenenbaum dtene...@fredhutch.org, Uwe Ligges
  lig...@statistik.tu-dortmund.de, Elliot Waingold
  elliot.waing...@microsoft.com
  Cc: R-devel@r-project.org r-devel@r-project.org
  Sent: Wednesday, August 12, 2015 12:42:39 PM
  Subject: RE: [Rd] download.file() on ftp URL fails in windows with
  default download method
  
  We were also able to reproduce the issue on Windows Server 2012. If
  there's anything we can do to help please let me know; Elliot
  Waingold (CC'd here) can provide access to the VM we used for
  testing if that's of any help.
  
 
 Thanks!
 
 I have just been looking at this issue with Martin Morgan. We found
 that if we or the additional flag INTERNET_FLAG_PASSIVE on line
 1012 of src/modules/internet/internet.c (R-3.2 branch, last changed
 in r68393)
 that the ftp connection works.
 
 Further investigation reveals that in a passive ftp connection,
 certain ports on the client need to be open.
 This machine is in the Amazon cloud so it was easy to open the ports.
 But we still have a problem and I believe it's that the wrong IP
 address is being sent to the server (on an AWS machine, the machine
 thinks of itself as having one IP address, but that is a private
 address that is valid inside AWS only).
 
 Here's a curl command line that gets around this by sending the
 correct address (or hostname):
 
 curl --ftp-port myhostname.com
 ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt
 
 Curl normally uses passive mode which is why it works, but the
 --ftp-port switch tells it to use active mode with the specified ip
 address or hostname.
 
 So I'm not sure where we go from here. One easy fix is just to add
 the INTERNET_FLAG_PASSIVE flag as described above. Another would be
 to first check if active mode works, and if not, use passive mode.
 
 Dan
 
 
  # David Smith
  
  --
  David M Smith david...@microsoft.com
  R Community Lead, Revolution Analytics (a Microsoft company)
  Tel: +1 (312) 9205766 (Chicago IL, USA)
  Twitter: @revodavid | Blog:  http://blog.revolutionanalytics.com
  We are hiring engineers for Revolution R and Azure Machine
  Learning.
  
  -Original Message-
  From: R-devel [mailto:r-devel-boun...@r-project.org] On Behalf Of
  Dan
  Tenenbaum
  Sent: Tuesday, August 11, 2015 09:51
  To: Uwe Ligges lig...@statistik.tu-dortmund.de
  Cc: R-devel@r-project.org
  Subject: Re: [Rd] download.file() on ftp URL fails in windows with
  default download method
  
  
  
  - Original Message -
   From: Dan Tenenbaum dtene...@fredhutch.org
   To: Uwe Ligges lig...@statistik.tu-dortmund.de
   Cc: R-devel@r-project.org r-devel@r-project.org
   Sent: Saturday, August 8, 2015 4:02:54 PM
   Subject: Re: [Rd] download.file() on ftp URL fails in windows
   with
   default download method
   
   
   
   - Original Message -
From: Uwe Ligges lig...@statistik.tu-dortmund.de
To: Dan Tenenbaum dtene...@fredhutch.org,
R-devel@r-project.org r-devel@r-project.org
Sent: Saturday, August 8, 2015 3:57:34 PM
Subject: Re: [Rd] download.file() on ftp URL fails in windows
with
default download method



On 08.08.2015 01:11, Dan Tenenbaum wrote:
 Hi,

 url -
 ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
 download.file(url, tempfile())
 trying URL
 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
 Error in download.file(url, tempfile()) :
cannot open URL

 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
 In addition: Warning message:
 In download.file(url, tempfile()) : InternetOpenUrl failed:
 ''

 If I set method=curl it works fine. This was on
 R-3.2.2-beta
 (sessionInfo() below) but I got the same results in R-3.2.1
 and
 R-devel.

 This does not happen on Windows Server 2008 but it happens on
 Windows Server 2012.


Thanks for letting us know. The kot recent machine I checked
with
is
Windows Server 2008 R2 and I have not got problems on those.
Can
someone else rerpoduce this on Windows Server 2012?

   
   If you like I can give you temporary access (via remote desktop)
   to
   a
   machine in the Amazon cloud.
   You can also download a Vagrant box here:
   
   https://na01.safelinks.protection.outlook.com/?url=https%3a%2f%2fatlas
   

Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-12 Thread Dan Tenenbaum
Hi David,

- Original Message -
 From: David Smith david...@microsoft.com
 To: Dan Tenenbaum dtene...@fredhutch.org, Uwe Ligges 
 lig...@statistik.tu-dortmund.de, Elliot Waingold
 elliot.waing...@microsoft.com
 Cc: R-devel@r-project.org r-devel@r-project.org
 Sent: Wednesday, August 12, 2015 12:42:39 PM
 Subject: RE: [Rd] download.file() on ftp URL fails in windows with default 
 download method
 
 We were also able to reproduce the issue on Windows Server 2012. If
 there's anything we can do to help please let me know; Elliot
 Waingold (CC'd here) can provide access to the VM we used for
 testing if that's of any help.
 

Thanks!

I have just been looking at this issue with Martin Morgan. We found that if we 
or the additional flag INTERNET_FLAG_PASSIVE on line 1012 of 
src/modules/internet/internet.c (R-3.2 branch, last changed in r68393)
that the ftp connection works.

Further investigation reveals that in a passive ftp connection, certain ports 
on the client need to be open.
This machine is in the Amazon cloud so it was easy to open the ports. But we 
still have a problem and I believe it's that the wrong IP address is being sent 
to the server (on an AWS machine, the machine thinks of itself as having one IP 
address, but that is a private address that is valid inside AWS only). 

Here's a curl command line that gets around this by sending the correct address 
(or hostname):

curl --ftp-port myhostname.com 
ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt

Curl normally uses passive mode which is why it works, but the --ftp-port 
switch tells it to use active mode with the specified ip address or hostname.

So I'm not sure where we go from here. One easy fix is just to add the 
INTERNET_FLAG_PASSIVE flag as described above. Another would be to first check 
if active mode works, and if not, use passive mode. 

Dan


 # David Smith
 
 --
 David M Smith david...@microsoft.com
 R Community Lead, Revolution Analytics (a Microsoft company)
 Tel: +1 (312) 9205766 (Chicago IL, USA)
 Twitter: @revodavid | Blog:  http://blog.revolutionanalytics.com
 We are hiring engineers for Revolution R and Azure Machine Learning.
 
 -Original Message-
 From: R-devel [mailto:r-devel-boun...@r-project.org] On Behalf Of Dan
 Tenenbaum
 Sent: Tuesday, August 11, 2015 09:51
 To: Uwe Ligges lig...@statistik.tu-dortmund.de
 Cc: R-devel@r-project.org
 Subject: Re: [Rd] download.file() on ftp URL fails in windows with
 default download method
 
 
 
 - Original Message -
  From: Dan Tenenbaum dtene...@fredhutch.org
  To: Uwe Ligges lig...@statistik.tu-dortmund.de
  Cc: R-devel@r-project.org r-devel@r-project.org
  Sent: Saturday, August 8, 2015 4:02:54 PM
  Subject: Re: [Rd] download.file() on ftp URL fails in windows with
  default download method
  
  
  
  - Original Message -
   From: Uwe Ligges lig...@statistik.tu-dortmund.de
   To: Dan Tenenbaum dtene...@fredhutch.org,
   R-devel@r-project.org r-devel@r-project.org
   Sent: Saturday, August 8, 2015 3:57:34 PM
   Subject: Re: [Rd] download.file() on ftp URL fails in windows
   with
   default download method
   
   
   
   On 08.08.2015 01:11, Dan Tenenbaum wrote:
Hi,
   
url -
ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
download.file(url, tempfile())
trying URL
'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
Error in download.file(url, tempfile()) :
   cannot open URL
   
'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
In addition: Warning message:
In download.file(url, tempfile()) : InternetOpenUrl failed: ''
   
If I set method=curl it works fine. This was on R-3.2.2-beta
(sessionInfo() below) but I got the same results in R-3.2.1 and
R-devel.
   
This does not happen on Windows Server 2008 but it happens on
Windows Server 2012.
   
   
   Thanks for letting us know. The kot recent machine I checked with
   is
   Windows Server 2008 R2 and I have not got problems on those. Can
   someone else rerpoduce this on Windows Server 2012?
   
  
  If you like I can give you temporary access (via remote desktop) to
  a
  machine in the Amazon cloud.
  You can also download a Vagrant box here:
  
  https://na01.safelinks.protection.outlook.com/?url=https%3a%2f%2fatlas
  .hashicorp.com%2fboxes%2fsearch%3futf8%3d%25E2%259C%2593%26sort%3d%26p
  rovider%3d%26q%3dwindows%2bserver%2b2012data=01%7c01%7cdavidsmi%40mic
  rosoft.com%7ce6746faa79b6426c81a508d2a26d3d35%7c72f988bf86f141af91ab2d
  7cd011db47%7c1sdata=Z5pE32RJ7wEs4UBfRxXSDEqG6ESxFSFmHdFCU78kuaA%3d
  
 
 Just wanted to check in about this to see whether anyone else has
 been able to reproduce this, or if Uwe has, or if anyone needs help
 setting up a test environment either in the cloud or by using a VM
 (like with Vagrant). I would be more than happy to help. I can set
 up a 

Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-12 Thread David Smith
We were also able to reproduce the issue on Windows Server 2012. If there's 
anything we can do to help please let me know; Elliot Waingold (CC'd here) can 
provide access to the VM we used for testing if that's of any help.

# David Smith

-- 
David M Smith david...@microsoft.com
R Community Lead, Revolution Analytics (a Microsoft company)  
Tel: +1 (312) 9205766 (Chicago IL, USA)
Twitter: @revodavid | Blog:  http://blog.revolutionanalytics.com
We are hiring engineers for Revolution R and Azure Machine Learning.

-Original Message-
From: R-devel [mailto:r-devel-boun...@r-project.org] On Behalf Of Dan Tenenbaum
Sent: Tuesday, August 11, 2015 09:51
To: Uwe Ligges lig...@statistik.tu-dortmund.de
Cc: R-devel@r-project.org
Subject: Re: [Rd] download.file() on ftp URL fails in windows with default 
download method



- Original Message -
 From: Dan Tenenbaum dtene...@fredhutch.org
 To: Uwe Ligges lig...@statistik.tu-dortmund.de
 Cc: R-devel@r-project.org r-devel@r-project.org
 Sent: Saturday, August 8, 2015 4:02:54 PM
 Subject: Re: [Rd] download.file() on ftp URL fails in windows with 
 default download method
 
 
 
 - Original Message -
  From: Uwe Ligges lig...@statistik.tu-dortmund.de
  To: Dan Tenenbaum dtene...@fredhutch.org, 
  R-devel@r-project.org r-devel@r-project.org
  Sent: Saturday, August 8, 2015 3:57:34 PM
  Subject: Re: [Rd] download.file() on ftp URL fails in windows with 
  default download method
  
  
  
  On 08.08.2015 01:11, Dan Tenenbaum wrote:
   Hi,
  
   url -
   ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
   download.file(url, tempfile())
   trying URL
   'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
   Error in download.file(url, tempfile()) :
  cannot open URL
  
   'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
   In addition: Warning message:
   In download.file(url, tempfile()) : InternetOpenUrl failed: ''
  
   If I set method=curl it works fine. This was on R-3.2.2-beta
   (sessionInfo() below) but I got the same results in R-3.2.1 and 
   R-devel.
  
   This does not happen on Windows Server 2008 but it happens on 
   Windows Server 2012.
  
  
  Thanks for letting us know. The kot recent machine I checked with is 
  Windows Server 2008 R2 and I have not got problems on those. Can 
  someone else rerpoduce this on Windows Server 2012?
  
 
 If you like I can give you temporary access (via remote desktop) to a 
 machine in the Amazon cloud.
 You can also download a Vagrant box here:
 
 https://na01.safelinks.protection.outlook.com/?url=https%3a%2f%2fatlas
 .hashicorp.com%2fboxes%2fsearch%3futf8%3d%25E2%259C%2593%26sort%3d%26p
 rovider%3d%26q%3dwindows%2bserver%2b2012data=01%7c01%7cdavidsmi%40mic
 rosoft.com%7ce6746faa79b6426c81a508d2a26d3d35%7c72f988bf86f141af91ab2d
 7cd011db47%7c1sdata=Z5pE32RJ7wEs4UBfRxXSDEqG6ESxFSFmHdFCU78kuaA%3d
 

Just wanted to check in about this to see whether anyone else has been able to 
reproduce this, or if Uwe has, or if anyone needs help setting up a test 
environment either in the cloud or by using a VM (like with Vagrant). I would 
be more than happy to help. I can set up a temporary instance in the cloud that 
interested parties could access at no cost.

This issue looks like a showstopper for Bioconductor; we are in the process of 
moving our build system, and we were upgrading from Windows Server 2008 to 
Windows Server 2012 in the process, but this issue is going to affect a lot of 
packages if it is not resolved.

What I can say is that it does not seem like a firewall issue, as the download 
works fine if I specify method=curl  (or libcurl) or paste the url into a 
browser, and I get the same results whether Windows Firewall is on or off.

My naive guess is that the InternetOpenUrl API has changed in between Windows 
Server 2008 and Windows Server 2012.

The offending call to this API seems to be at 
src/modules/internet/internet.c:#908 (in the R-3.2 branch; I did try R-devel as 
of r68987 and it still has this problem).

I am really hoping something can be done about this before the release of 
R-3.2.2.

Thanks!
Dan



 Dan
 
 
 
  Best,
  Uwe Ligges
  
  
   Dan
  
   sessionInfo()
   R version 3.2.2 beta (2015-08-05 r68859)
   Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 
   Server 2012 x64 (build 9200)
  
   locale:
   [1] LC_COLLATE=English_United States.1252 [2] 
   LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United 
   States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United 
   States.1252
  
   attached base packages:
   [1] stats graphics  grDevices utils datasets  methods
 base
  
   __
   R-devel@r-project.org mailing list 
   https://na01.safelinks.protection.outlook.com/?url=https%3a%2f%2fs
   tat.ethz.ch%2fmailman%2flistinfo%2fr-develdata=01%7c01%7cdavidsmi
   

Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-11 Thread Dan Tenenbaum


- Original Message -
 From: Dan Tenenbaum dtene...@fredhutch.org
 To: Uwe Ligges lig...@statistik.tu-dortmund.de
 Cc: R-devel@r-project.org r-devel@r-project.org
 Sent: Saturday, August 8, 2015 4:02:54 PM
 Subject: Re: [Rd] download.file() on ftp URL fails in windows with default 
 download method
 
 
 
 - Original Message -
  From: Uwe Ligges lig...@statistik.tu-dortmund.de
  To: Dan Tenenbaum dtene...@fredhutch.org,
  R-devel@r-project.org r-devel@r-project.org
  Sent: Saturday, August 8, 2015 3:57:34 PM
  Subject: Re: [Rd] download.file() on ftp URL fails in windows with
  default download method
  
  
  
  On 08.08.2015 01:11, Dan Tenenbaum wrote:
   Hi,
  
   url -
   ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
   download.file(url, tempfile())
   trying URL
   'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
   Error in download.file(url, tempfile()) :
  cannot open URL
  
   'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
   In addition: Warning message:
   In download.file(url, tempfile()) : InternetOpenUrl failed: ''
  
   If I set method=curl it works fine. This was on R-3.2.2-beta
   (sessionInfo() below) but I got the same results in R-3.2.1 and
   R-devel.
  
   This does not happen on Windows Server 2008 but it happens on
   Windows Server 2012.
  
  
  Thanks for letting us know. The kot recent machine I checked with
  is
  Windows Server 2008 R2 and I have not got problems on those. Can
  someone
  else rerpoduce this on Windows Server 2012?
  
 
 If you like I can give you temporary access (via remote desktop) to a
 machine in the Amazon cloud.
 You can also download a Vagrant box here:
 
 https://atlas.hashicorp.com/boxes/search?utf8=%E2%9C%93sort=provider=q=windows+server+2012
 

Just wanted to check in about this to see whether anyone else has been able to 
reproduce this, or if Uwe has, or if anyone needs help setting up a test 
environment either in the cloud or by using a VM (like with Vagrant). I would 
be more than happy to help. I can set up a temporary instance in the cloud that 
interested parties could access at no cost.

This issue looks like a showstopper for Bioconductor; we are in the process of 
moving our build system, and we were upgrading from Windows Server 2008 to 
Windows Server 2012 in the process, but this issue is going to affect a lot of 
packages if it is not resolved.

What I can say is that it does not seem like a firewall issue, as the download 
works fine if I specify method=curl  (or libcurl) or paste the url into a 
browser, and I get the same results whether Windows Firewall is on or off.

My naive guess is that the InternetOpenUrl API has changed in between Windows 
Server 2008 and Windows Server 2012.

The offending call to this API seems to be at 
src/modules/internet/internet.c:#908 (in the R-3.2 branch; I did try R-devel as 
of r68987 and it still has this problem).

I am really hoping something can be done about this before the release of 
R-3.2.2.

Thanks!
Dan



 Dan
 
 
 
  Best,
  Uwe Ligges
  
  
   Dan
  
   sessionInfo()
   R version 3.2.2 beta (2015-08-05 r68859)
   Platform: x86_64-w64-mingw32/x64 (64-bit)
   Running under: Windows Server 2012 x64 (build 9200)
  
   locale:
   [1] LC_COLLATE=English_United States.1252
   [2] LC_CTYPE=English_United States.1252
   [3] LC_MONETARY=English_United States.1252
   [4] LC_NUMERIC=C
   [5] LC_TIME=English_United States.1252
  
   attached base packages:
   [1] stats graphics  grDevices utils datasets  methods
 base
  
   __
   R-devel@r-project.org mailing list
   https://stat.ethz.ch/mailman/listinfo/r-devel
  
 
 
 __
 R-devel@r-project.org mailing list
 https://stat.ethz.ch/mailman/listinfo/r-devel


__
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Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-08 Thread Henrik Bengtsson
Works for me on Windows 7.  Also when I explicitly set 'method' to
internal, libcurl, curl, wininet and 'wget.

 sessionInfo()
R version 3.2.2 beta (2015-08-04 r68843)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

attached base packages:
[1] stats graphics  grDevices utils datasets  methods   base

loaded via a namespace (and not attached):
[1] tools_3.2.2

/Henrik

On Sat, Aug 8, 2015 at 1:11 AM, Dan Tenenbaum dtene...@fredhutch.org wrote:
 Hi,

 url - 
 ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
 download.file(url, tempfile())
 trying URL 
 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
 Error in download.file(url, tempfile()) :
   cannot open URL 
 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
 In addition: Warning message:
 In download.file(url, tempfile()) : InternetOpenUrl failed: ''

 If I set method=curl it works fine. This was on R-3.2.2-beta (sessionInfo() 
 below) but I got the same results in R-3.2.1 and R-devel.

 This does not happen on Windows Server 2008 but it happens on Windows Server 
 2012.

 Dan

 sessionInfo()
 R version 3.2.2 beta (2015-08-05 r68859)
 Platform: x86_64-w64-mingw32/x64 (64-bit)
 Running under: Windows Server 2012 x64 (build 9200)

 locale:
 [1] LC_COLLATE=English_United States.1252
 [2] LC_CTYPE=English_United States.1252
 [3] LC_MONETARY=English_United States.1252
 [4] LC_NUMERIC=C
 [5] LC_TIME=English_United States.1252

 attached base packages:
 [1] stats graphics  grDevices utils datasets  methods   base

 __
 R-devel@r-project.org mailing list
 https://stat.ethz.ch/mailman/listinfo/r-devel

__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel


Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-08 Thread Uwe Ligges



On 08.08.2015 01:11, Dan Tenenbaum wrote:

Hi,


url - 
ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
download.file(url, tempfile())

trying URL 
'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
Error in download.file(url, tempfile()) :
   cannot open URL 
'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
In addition: Warning message:
In download.file(url, tempfile()) : InternetOpenUrl failed: ''

If I set method=curl it works fine. This was on R-3.2.2-beta (sessionInfo() 
below) but I got the same results in R-3.2.1 and R-devel.

This does not happen on Windows Server 2008 but it happens on Windows Server 
2012.



Thanks for letting us know. The kot recent machine I checked with is 
Windows Server 2008 R2 and I have not got problems on those. Can someone 
else rerpoduce this on Windows Server 2012?


Best,
Uwe Ligges



Dan


sessionInfo()

R version 3.2.2 beta (2015-08-05 r68859)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2012 x64 (build 9200)

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

attached base packages:
[1] stats graphics  grDevices utils datasets  methods   base

__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel



__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel


Re: [Rd] download.file() on ftp URL fails in windows with default download method

2015-08-08 Thread Dan Tenenbaum


- Original Message -
 From: Uwe Ligges lig...@statistik.tu-dortmund.de
 To: Dan Tenenbaum dtene...@fredhutch.org, R-devel@r-project.org 
 r-devel@r-project.org
 Sent: Saturday, August 8, 2015 3:57:34 PM
 Subject: Re: [Rd] download.file() on ftp URL fails in windows with default 
 download method
 
 
 
 On 08.08.2015 01:11, Dan Tenenbaum wrote:
  Hi,
 
  url -
  ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt;
  download.file(url, tempfile())
  trying URL
  'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
  Error in download.file(url, tempfile()) :
 cannot open URL
 
  'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_01405.13.assembly.txt'
  In addition: Warning message:
  In download.file(url, tempfile()) : InternetOpenUrl failed: ''
 
  If I set method=curl it works fine. This was on R-3.2.2-beta
  (sessionInfo() below) but I got the same results in R-3.2.1 and
  R-devel.
 
  This does not happen on Windows Server 2008 but it happens on
  Windows Server 2012.
 
 
 Thanks for letting us know. The kot recent machine I checked with is
 Windows Server 2008 R2 and I have not got problems on those. Can
 someone
 else rerpoduce this on Windows Server 2012?
 

If you like I can give you temporary access (via remote desktop) to a machine 
in the Amazon cloud.
You can also download a Vagrant box here:

https://atlas.hashicorp.com/boxes/search?utf8=%E2%9C%93sort=provider=q=windows+server+2012

Dan



 Best,
 Uwe Ligges
 
 
  Dan
 
  sessionInfo()
  R version 3.2.2 beta (2015-08-05 r68859)
  Platform: x86_64-w64-mingw32/x64 (64-bit)
  Running under: Windows Server 2012 x64 (build 9200)
 
  locale:
  [1] LC_COLLATE=English_United States.1252
  [2] LC_CTYPE=English_United States.1252
  [3] LC_MONETARY=English_United States.1252
  [4] LC_NUMERIC=C
  [5] LC_TIME=English_United States.1252
 
  attached base packages:
  [1] stats graphics  grDevices utils datasets  methods
base
 
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