[Bioperl-l] installation problem

Osborne, Brian Brian.Osborne@osip.com
Mon, 5 Nov 2001 10:10:03 -0500


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Yi,
 
You have some options. One is to install all the modules in your own home
directory, and you do this by modifying the commonly used PREFIX value.
Here's a page that describes how this is done :
 
http://www.iserver.com/support/virtual/perl/mod/install.html
<http://www.iserver.com/support/virtual/perl/mod/install.html> 
 
Another way is to get your system administrator to set you up with root
privileges for installing Perl modules. Typically the sysadmin would use
'sudo' to allow a user to run a specific command, here's a page on sudo :
 
http://www.courtesan.com/sudo <http://www.courtesan.com/sudo> 
 
The command that the sysadmin would enable would be 'perl -MCPAN -e shell',
and the command that you would run would be 'sudo perl -MCPAN -e shell'. A
third option is also described in that first page above, where you'd do
'perl -MCPAN -e shell' and then you would set the value of PREFIX to be a
location in your home directory.
 
Brian O.
 
 
-----Original Message-----
From: Yi Xing [mailto:yxing77@hotmail.com]
Sent: Sunday, November 04, 2001 5:16 AM
To: bioperl-l@bioperl.org
Subject: [Bioperl-l] installation problem
 
hello,
 
I met some problem during installation. Because I don't have root
priviledge, so when I tried to install bioperl on my machine I can not write
to /usr directory so the installation failed. 
 
Is there any solution for this? Otherwise I have to contact my system
administrator to ask him install bio-perl?
 
Thanks .
 
Yi

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i,<o:p></o:p></span></font></span></p>

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color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'>Y=
ou have
some options. One is to install all the modules in your own home =
directory, and
you do this by modifying the commonly used PREFIX value. Here&#8217;s a =
page that
describes how this is done :<o:p></o:p></span></font></span></p>

<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'><=
![if =
!supportEmptyParas]>&nbsp;<![endif]><o:p></o:p></span></font></span></p>=


<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'><=
a
href=3D"http://www.iserver.com/support/virtual/perl/mod/install.html">ht=
tp://www.iserver.com/support/virtual/perl/mod/install.html</a><o:p></o:p=
></span></font></span></p>

<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
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style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'><=
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<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'>A=
nother
way is to get your system administrator to set you up with root =
privileges for installing
Perl modules. Typically the sysadmin would use &#8216;sudo&#8217; to =
allow a user to run a
specific command, here&#8217;s a page on sudo =
:<o:p></o:p></span></font></span></p>

<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'><=
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color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'><=
a
href=3D"http://www.courtesan.com/sudo">http://www.courtesan.com/sudo</a>=
<o:p></o:p></span></font></span></p>

<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
color=3Dnavy face=3DArial><span
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color=3Dnavy face=3DArial><span
style=3D'font-size:10.0pt;mso-bidi-font-size:12.0pt;font-family:Arial'>T=
he
command that the sysadmin would enable would be &#8216;perl =
&#8211;MCPAN &#8211;e shell&#8217;, and the
command that you would run would be &#8216;sudo perl &#8211;MCPAN =
&#8211;e shell&#8217;. A third option
is also described in that first page above, where you&#8217;d do =
&#8216;perl &#8211;MCPAN &#8211;e shell&#8217;
and then you would set the value of PREFIX to be a location in your =
home
directory.<o:p></o:p></span></font></span></p>

<p class=3DMsoNormal><span class=3DEmailStyle15><font size=3D2 =
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rian O.<o:p></o:p></span></font></span></p>

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<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DTahoma><span =
style=3D'font-size:10.0pt;font-family:Tahoma;color:black'>-----Original
Message-----<br>
<b><span style=3D'font-weight:bold'>From:</span></b> Yi Xing
[mailto:yxing77@hotmail.com]<br>
<b><span style=3D'font-weight:bold'>Sent:</span></b> Sunday, November =
04, 2001
5:16 AM<br>
<b><span style=3D'font-weight:bold'>To:</span></b> =
bioperl-l@bioperl.org<br>
<b><span style=3D'font-weight:bold'>Subject:</span></b> [Bioperl-l] =
installation
problem</span></font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 =
face=3D"Times New Roman"><span
style=3D'font-size:12.0pt'><![if =
!supportEmptyParas]>&nbsp;<![endif]><o:p></o:p></span></font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DArial><span =
style=3D'font-size:10.0pt;font-family:Arial;color:black'>hello,</span></=
font><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 =
color=3Dblack
face=3D"Times New Roman"><span =
style=3D'font-size:12.0pt;color:black'>&nbsp;</span></font><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DArial><span =
style=3D'font-size:10.0pt;font-family:Arial;color:black'>I met
some problem during installation. Because I don't have root priviledge, =
so when
I tried to install bioperl on my machine I can not write to /usr =
directory so
the installation failed. </span></font><font color=3Dblack><span
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 =
color=3Dblack
face=3D"Times New Roman"><span =
style=3D'font-size:12.0pt;color:black'>&nbsp;</span></font><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DArial><span =
style=3D'font-size:10.0pt;font-family:Arial;color:black'>Is
there any solution for this? Otherwise I have to contact my system
administrator to ask him install bio-perl?</span></font><font =
color=3Dblack><span
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 =
color=3Dblack
face=3D"Times New Roman"><span =
style=3D'font-size:12.0pt;color:black'>&nbsp;</span></font><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DArial><span =
style=3D'font-size:10.0pt;font-family:Arial;color:black'>Thanks
.</span></font><font color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 =
color=3Dblack
face=3D"Times New Roman"><span =
style=3D'font-size:12.0pt;color:black'>&nbsp;</span></font><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 =
color=3Dblack
face=3DArial><span =
style=3D'font-size:10.0pt;font-family:Arial;color:black'>Yi</span></font=
><font
color=3Dblack><span =
style=3D'color:black;mso-color-alt:windowtext'><o:p></o:p></span></font>=
</p>

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