[Bioc-devel] problem with git / svn transition: ssh keys
Luo Weijun
luo_weijun at yahoo.com
Tue Sep 12 19:26:30 CEST 2017
Well, I modified the file acces by:
chmod 400 ~/.ssh/id_rsa
it goes further, but the passphrase I stored seems not work (as below). I couldn’t change passphrase either due to the same problem. Can I remove the old ssh key, regenerated/resubmit a new key? What’s the best way to proceed?
luo$ git clone git at git.bioconductor.org:packages/pathview
Cloning into 'pathview'...
Enter passphrase for key '/Users/luo/.ssh/id_rsa':
Enter passphrase for key '/Users/luo/.ssh/id_rsa':
Enter passphrase for key '/Users/luo/.ssh/id_rsa':
Permission denied (publickey).
fatal: Could not read from remote repository.
Please make sure you have the correct access rights
and the repository exists.
--------------------------------------------
On Tue, 9/12/17, Turaga, Nitesh <Nitesh.Turaga at RoswellPark.org> wrote:
Subject: Re: problem with git / svn transition: ssh keys
Cc: "Morgan, Martin" <Martin.Morgan at RoswellPark.org>, "Bioc-devel" <bioc-devel at r-project.org>
Date: Tuesday, September 12, 2017, 12:39 PM
http://bioconductor.org/developers/how-to/git/faq/
You need point#16 on the FAQ section.
Change your permissions.
> On Sep 12, 2017, at 12:35 PM, Luo
wrote:
>
> The original file name was
id_rsa.pub.pub.
> I changed it to id_rsa.pub or
id_rsa now. It stops complaining about the invalid format,
but still have permission problem.
>
> ##id_rsa.pub
> luo$ git clone git at git.bioconductor.org:packages/pathview
> Cloning into 'pathview'...
> Permission denied (publickey).
> fatal: Could not read from remote
repository.
>
> Please make sure you have the
correct access rights
> and the repository exists.
>
> ##id_rsa
> git clone git at git.bioconductor.org:packages/pathview
> Cloning into 'pathview'...
>
@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
> @
WARNING: UNPROTECTED PRIVATE KEY FILE!
@
>
@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
> Permissions 0644 for
'~/.ssh/id_rsa' are too open.
> It is required that your private
key files are NOT accessible by others.
> This private key will be ignored.
> Load key "~/.ssh/id_rsa": bad
permissions
> Permission denied (publickey).
> fatal: Could not read from remote
repository.
>
> Please make sure you have the
correct access rights
> and the repository exists.
>
>
--------------------------------------------
> On Tue, 9/12/17, Turaga, Nitesh
<Nitesh.Turaga at RoswellPark.org>
wrote:
>
> Subject: Re: problem with git /
svn transition: ssh keys
> Cc: "Morgan, Martin" <Martin.Morgan at RoswellPark.org>,
"Bioc-devel" <bioc-devel at r-project.org>
> Date: Tuesday, September 12, 2017,
12:20 PM
>
> What name did you store your key
> under? “id_rsa” or something
else?
>
> Nitesh
>
>> On
> Sep 12, 2017, at 12:11 PM, Luo
> wrote:
>>
>> the
> following the are commands I used
and output:
>>
>> luo$ git clone git at git.bioconductor.org:packages/pathview
>> Cloning into 'pathview'...
>> key_load_public: invalid
format
>> Permission denied
(publickey).
>> fatal: Could not read from
remote
> repository.
>>
>>
> Please make sure you have the
correct access rights
>> and the repository exists.
>> luo$ ssh -T git at git.bioconductor.org
>> key_load_public: invalid
format
>> Permission denied
(publickey).
>>
>> Is it because the
> ssh key is still not in the right
format because the suffix
> was removed as I mentioned in
previous email?
>>
>> BTW, my ssh key
> should be associated with gage
package too.
>>
>>
>
--------------------------------------------
>> On Tue, 9/12/17, Turaga,
Nitesh <Nitesh.Turaga at RoswellPark.org>
> wrote:
>>
>> Subject:
> Re: problem with git / svn
transition: ssh keys
>> Cc: "Morgan, Martin" <Martin.Morgan at RoswellPark.org>,
> "Bioc-devel" <bioc-devel at r-project.org>
>> Date: Tuesday, September 12,
2017, 11:47
> AM
>>
>> Your key is in
> our system. It
>> starts with,
>>
>> ssh-rsa
>>
>
AAAAB3NzaC1yc2EAAAADAQABAAACAQD4+kbkP7J0rkIGy81r9fO+4tCgHzQXfkthRu/MFPE7AMvZy7SeNf9WuxPQtMeOjAl
>>
>> It is associated
> with the
>> correct package
“pathview”
> and also “gageData”.
>>
>> Please give me more
>>
> information to help you. Show me
the exact commands you
> are
>> running.
>>
>> i.e
>>
>> git clone
git at git.bioconductor.org:packages/pathview
>>
>> If that doesn’t
> work,
>> then,
>>
>> ssh -T git at git.bioconductor.org
>>
>>
>> Check out put for
>>
> “pathview” package. Please
also send the email to
>> Bioc-devel.
>>
>> Best,
>>
>> Nitesh
>>
>>
>>> On Sep 12, 2017,
> at 11:39
>> wrote:
>>>
>>> Nitesh,
>>> I
> resubmit my ssh public key based
on your
>> suggestion last Friday. But I
still cannot
> git clone my
>> package respository. The
> same error remain as below. Can
you
>>
> check into this?
>>> Weijun
>>>
>>> Cloning
> into
>> 'pathview'...
>>> key_load_public:
>>
> invalid format
>>> Permission denied
>> (publickey).
>>>
> fatal: Could not read from
>> remote
> repository.
>>>
>>> Please make sure you have
the
> correct
>> access rights
>>> and the repository
>> exists.
>>>
>>>
>>
>
--------------------------------------------
>>> On Fri, 9/8/17, Luo Weijun
>> wrote:
>>>
>>> Subject:
>> Re:
> problem with git / svn transition:
ssh keys
>>> To: "NiteshTuraga" <Nitesh.Turaga at RoswellPark.org>
>>> Cc: "MartinMorgan" <Martin.Morgan at RoswellPark.org>
>>> Date: Friday, September 8,
2017,
> 12:23
>> PM
>>>
>>> Nitesh,
>>> I
> just submitted it. The problem is
>>>
> gone indeed.
>>> Could
>> you process my request and
assign
>>> me
>> the git
> access? Thanks.
>>> Weijun
>>>
>>>
>>
>
--------------------------------------------
>>> On Fri, 9/8/17, Turaga,
Nitesh <Nitesh.Turaga at RoswellPark.org>
>>> wrote:
>>>
>>> Subject: Re:
problem with git /
> svn
>>> transition: ssh keys
>>> To: "Luo
>>> Cc: "Morgan,
Martin"
> <Martin.Morgan at RoswellPark.org>
>>> Date: Friday,
September 8, 2017,
>> 10:31
>>> AM
>>>
>>> Hi
> Weijun,
>>>
>>>
> I understand this was a
problem
>>>
> earlier on our
>>> end,
>> and it has been fixed.
>>>
>>> Is it
> still the case that it gives
>>> the
>>> “Github ID
>>
> cannot contain spaces”
>>> error? If
> so,
>> can you
>>>
> take a screen shot and send
>> it to
> me.
>>> I’ve tried it a few
>>> times and it
does not give me
> that
>>> error anymore.
>>>
>>> Nitesh
>
>>>
>>>
>>>> On Sep 8, 2017,
>> at 10:22
>>> AM,
>>> wrote:
>>>>
>
>>>> Nitesh,
>>>> As I
>>
> mentioned previously, I
>>> tried to
>>> submit with
the prefix ssh-rsa,
> but
>> it
>>> always
> complained
>>> that
“Github ID
> cannot contain
>>> spaces” since
> there is a
>>> space
following
> ssh-rsa. I guess it
>>> will allow me
> submit if
>>> I remove the
empty
> space, but would
>>> that be a
> functional ssh
>>> key?
>>>> BTW, the
>> web
> form error“Github
>>> ID cannot
>> contain spaces” seem to
>>> wrong as this
>> is
> ssh key
>>> submission.
>>>> Weijun
>>>>
>>>
>>>>
>>>
>>>
>>
>
--------------------------------------------
>>>> On Thu, 9/7/17,
Turaga, Nitesh
>>> <Nitesh.Turaga at RoswellPark.org>
>>> wrote:
>>>>
>
>>>> Subject:
>>> Re:
>> problem
> with git / svn transition:
>>> ssh
>> keys
>>>> To:
> "Luo Weijun"
>>>> Cc: "Morgan, Martin"
> <Martin.Morgan at RoswellPark.org>
>>>> Date: Thursday,
September 7,
>>> 2017, 5:20
>>>
> PM
>>>>
>>>> Hi Luo,
>>>>
>>>> The
> key we
>> have on
>>> file is
missing the
>> starting
>>>>
> `ssh-rsa`.
>>> Could you
please
> resubmit?
>>>>
>>>> Best,
>>>>
>
>>>> Nitesh
>>>>
>>>>
>>>>>
>>>>
> On Sep
>> 7, 2017, at 5:04 PM, Luo
>>> Weijun
>>>
>>>> wrote:
>>>>>
>>
>>>>> Just want
>>>> to make
>>>
> sure
>> that you see my email below.
I
>>> still
>> have the
>>>> same problem at this
>> time.
>>>>>
> Weijun
>>>>>
>>>>>
>>>>
>
>>>
>>>
>>
>
--------------------------------------------
>>>>> On Wed, 9/6/17,
Luo Weijun
>>>> wrote:
>>>>>
>>
>>>>> Subject:
>>>> problem
>>>
> with
>> git / svn transition: ssh
keys
>>>>>
>>
>>> To:
"NiteshTuraga" <Nitesh.Turaga at RoswellPark.org>
>>>>> Cc: "Martin
> Morgan"
>> <martin.morgan at roswellpark.org>
>>>>> Date: Wednesday,
September
> 6,
>>> 2017,
>>>
> 11:32
>>>> AM
>>>>>
>>>>> Dear
>>>>
>> Nitesh,
>>>>> I submitted my
ssh
>> keys
>>>>
> online
>>>>> yesterday.
>>>
>> However, I
> still
>>>> cannot git clone
>> my
>>> packages
>>>>> from
>>>>
>>>
> github. Could you help me?
Thanks!
>>>>>
>>>
> The
>>>> error message below
see
> to
>>>>> complained
>>>> the
>>>
> public key
>> format. My ssh public key
>>> looks
>>>>>
> like:
>>>>>
>>> ssh-rsa
>>>> AAAAB3NzaC1y….FHQ==
>>>>> but the google web
form
>>> always
>>>>>
>>
> complained “Github ID
>>> cannot
>>> contain
>>>>
>> spaces”.
> So I
>>>>> removed the
>> prefix and
>>>>
> suffix parts:
>> "ssh-rsa "
> and
>>>>> it got through
after that.
>>>>> Weijun
>>>>>
>>>>>
>>>>> $ git clone
>>>
>> git at git.bioconductor.org:packages/pathview
>>>>> Cloning into
>> 'pathview'...
>>>>>
>>
> key_load_public: invalid
>>> format
>>>>> Permission denied
>>> (publickey).
>>>>>
>> fatal:
> Could not read from
>>> remote
>>>>> repository.
>>>>>
>>>
>>>>> Please make sure
you have
>>> the
>>>
> correct
>>>>> access rights
>>>>> and the
>>>>
>>
>>> repository
exists.
>>>>
>>>>
>>>>
>>>>
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