[EMBOSS] accessing emboss ftp site

[Chris Dagdigian]

I'll check into this. We run the standard VS-FTPD server on the box but 
it has not been updated in a while.

We also use an upstream Juniper SSG-series firewall and intrusion 
detection system and sometimes it gets messed up and affects individual 
TCP sessions. A reboot of the firewall usually clears things up.

Given the problems with options maybe it is the vs-ftpd configuration 
though. I'll give it a look.

-Chris



Hamish McWilliam wrote:
> Hi Chris,
>
> I'm also seeing problems with the FTP site, but using Mirror rather
> than Transmit, it looks like the server does not like options being
> specified to the LIST command:
>
> Scanning remote directory /pub/EMBOSS
> --->  CWD /pub/EMBOSS
> 250 Directory successfully changed.
> --->  TYPE A
> 200 Switching to ASCII mode.
> --->  PORT 172,21,22,1,171,245
> 200 PORT command successful. Consider using PASV.
> --->  PASV
> 227 Entering Passive Mode (208,94,50,58,104,178)
> --->  LIST -lat
> timed out
> Cannot get remote directory listing because: timed out
> Cannot get remote directory details (/pub/EMBOSS)
> disconnecting from emboss.open-bio.org
>
> Trying it with a command line client I get the response to hang if I
> try using any options to ls or dir, without options they are fine.
>
> All the best,
>
> Hamish
>
> On 29 May 2010 03:44, Koen van der Drift<koenvanderdrift at gmail.com>  wrote:
>> Hi Chris,
>>
>> Did you have a chance to look at this? Just tried again, and Transmit still
>> won't let me access the emboss ftp site.
>>
>> Thanks,
>>
>> - Koen.
>>
>>
>> On Apr 23, 2010, at 11:44 AM, Chris Dagdigian wrote:
>>
>>> In the last few months the open-bio.org servers switched datacenters, IP
>>> addresses and firewall/IDS appliances. Lots of juicy things to look at and
>>> debug.
>>>
>>> Koen - if you have a chance can you send me the IP address that you are
>>> using to connect from? I might be able to find some relevant log entries
>>> with that info.
>>>
>>> -Chris
>>>
>>>
>>>
>>> Koen van der Drift wrote:
>>>> Just for the record, it used to work with Transmit, this is only from
>>>> the last few months.
>>>>
>>>> - Koen.
>>>>
>>>> On Thu, Apr 22, 2010 at 7:28 PM, Chris Dagdigian<dag at sonsorol.org>
>>>>   wrote:
>>>>> Might be an issue with the Juniper Netscreen firewall/IDS security
>>>>> appliance
>>>>> that sits upstream of the EMBOSS FTP server. I'll take a look at the
>>>>> security logs and alerts.
>>>>>
>>>>> -Chris
>>>>>
>>>>>
>>>>> Koen van der Drift wrote:
>>>>>> Hi,
>>>>>>
>>>>>> For a while now I am unable to access the emboss ftp site using the OS
>>>>>> X
>>>>>> client Transmit. Loggin in works fine, but it chokes on the LIST
>>>>>> command. I have no problems accessing it from the command line. I have
>>>>>> added the output from Transmit below. I don't know if this is a
>>>>>> Transmit
>>>>>> or emboss issue, but just wanted to let you know.
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> - Koen.
>>>>>>
>>>>>>
>>>>>> Transmit 3.6.9 Session Transcript
>>>>>> LibNcFTP 3.2.1 (August 13, 2007) compiled for UNIX
>>>>>> Uname: Darwin|exile.local|9.8.0|Darwin Kernel Version 9.8.0: Wed Jul 15
>>>>>> 16:57:01 PDT 2009; root:xnu-1228.15.4~1/RELEASE_PPC|Power Macintosh
>>>>>> 220: (vsFTPd 2.0.1)
>>>>>> Connected to emboss.open-bio.org.
>>>>>> Cmd: USER anonymous
>>>>>> 331: Please specify the password.
>>>>>> Cmd: PASS NcFTP@
>>>>>> 230: Login successful.
>>>>>> Cmd: TYPE A
>>>>>> 200: Switching to ASCII mode.
>>>>>> Logged in to emboss.open-bio.org as anonymous.
>>>>>> Cmd: SYST
>>>>>> 215: UNIX Type: L8
>>>>>> Cmd: PWD
>>>>>> 257: "/"
>>>>>> Cmd: CWD /pub/EMBOSS/fixes
>>>>>> 250: Directory successfully changed.
>>>>>> Cmd: PWD
>>>>>> 257: "/pub/EMBOSS/fixes"
>>>>>> Cmd: PASV
>>>>>> 227: Entering Passive Mode (208,94,50,58,83,232)
>>>>>> Cmd: LIST -a
>>>>>> Could not read reply from control connection -- timed out. (SReadline
>>>>>> 1)
>>>>>> 220: (vsFTPd 2.0.1)
>>>>>> Connected to emboss.open-bio.org.
>>>>>> Cmd: USER anonymous
>>>>>> 331: Please specify the password.
>>>>>> Cmd: PASS NcFTP@
>>>>>> 230: Login successful.
>>>>>> Logged in to emboss.open-bio.org as anonymous.
>>>>>> Cmd: SYST
>>>>>> 215: UNIX Type: L8
>>>>>> Cmd: PWD
>>>>>> 257: "/"
>>>>>> Cmd: CWD /pub/EMBOSS/fixes
>>>>>> 250: Directory successfully changed.
>>>>>> Cmd: PWD
>>>>>> 257: "/pub/EMBOSS/fixes"
>>>>>> Cmd: PASV
>>>>>> 227: Entering Passive Mode (208,94,50,58,222,100)
>>>>>> Cmd: LIST -a
>>>>>> Could not read reply from control connection -- timed out. (SReadline
>>>>>> 1)
>>>>>>
>>>>>> _______________________________________________
>>>>>> EMBOSS mailing list
>>>>>> EMBOSS at lists.open-bio.org
>>>>>> http://lists.open-bio.org/mailman/listinfo/emboss
>> _______________________________________________
>> EMBOSS mailing list
>> EMBOSS at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/emboss
>>
>
>
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