a problem of installing GBrowse 2

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a problem of installing GBrowse 2

zhuang chao
I installed  GBrowse 2 by running the CPAN shell.

I get the following error message . How can I solve

the problem. Thank you very much!

===========================================
cpan[4]> install Bio::Graphics::Browser2
Running install for module 'Bio::Graphics::Browser2'
Running Build for L/LD/LDS/GBrowse-2.08.tar.gz
  Has already been unwrapped into
directory /root/.cpan/build/GBrowse-2.08-S1aBIH
  Has already been made
Running Build test
NOTE: Run ./Build reconfig to change existing configuration.
t/01yeast.t ............... ok  
t/02.rearchitecture.t ..... ok    
t/03.render.t ............. 121/138 Use of uninitialized value $png in
substitution (s///) at t/03.render.t line 444.
Use of uninitialized value $png in -e at t/03.render.t line 445.
Use of uninitialized value $png in substitution (s///) at t/03.render.t
line 455.
Use of uninitialized value $png in -e at t/03.render.t line 456.
t/03.render.t ............. Failed 4/138 subtests
t/04.remoteserver.t ....... Failed 5/43 subtests
t/05.deferredrendering.t .. 4/19 Use of uninitialized value in -e at
t/05.deferredrendering.t line 148.
t/05.deferredrendering.t .. Failed 2/19 subtests
t/06.featuresearch.t ...... ok    
t/07.karyotype.t .......... ok  
t/08.calign.t ............. ok  

Test Summary Report
-------------------
t/03.render.t           (Wstat: 0 Tests: 138 Failed: 4)
  Failed tests:  122-123, 125-126
t/04.remoteserver.t     (Wstat: 0 Tests: 39 Failed: 1)
  Failed test:  39
  Parse errors: Bad plan.  You planned 43 tests but ran 39.
t/05.deferredrendering.t (Wstat: 0 Tests: 19 Failed: 2)
  Failed tests:  16-17
Files=8, Tests=328, 22 wallclock secs ( 0.07 usr  0.02 sys +  9.73 cusr
2.51 csys = 12.33 CPU)
Result: FAIL
Failed 3/8 test programs. 7/328 subtests failed.
  LDS/GBrowse-2.08.tar.gz
  ./Build test -- NOT OK
//hint// to see the cpan-testers results for installing this module,
try:
  reports LDS/GBrowse-2.08.tar.gz
Running Build install
  make test had returned bad status, won't install without force
Failed during this command:
 LDS/GBrowse-2.08.tar.gz                      : make_test NO

=====================================================



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Re: a problem of installing GBrowse 2

Dave Clements, GMOD Help Desk-3
Hi Zhuangchao,

I'm sorry this problem hasn't gone away since you first reported it in April.  (See http://old.nabble.com/a-problem-of-installing--GBrowse-2-to28263996.html#a28263996 for that thread.)

It looks like the number of failed tests in render.t have dropped from 6 to 4 (tests 127 & 128 now pass), but I don't know why.  The most likely source of these errors is a problem with GD, but I'm not sure of that.

Does anyone have more concrete suggestions?

Dave C.

On Tue, Jun 8, 2010 at 2:00 AM, zhuangchao <[hidden email]> wrote:
I installed  GBrowse 2 by running the CPAN shell.

I get the following error message . How can I solve

the problem. Thank you very much!

===========================================
cpan[4]> install Bio::Graphics::Browser2
Running install for module 'Bio::Graphics::Browser2'
Running Build for L/LD/LDS/GBrowse-2.08.tar.gz
 Has already been unwrapped into
directory /root/.cpan/build/GBrowse-2.08-S1aBIH
 Has already been made
Running Build test
NOTE: Run ./Build reconfig to change existing configuration.
t/01yeast.t ............... ok
t/02.rearchitecture.t ..... ok
t/03.render.t ............. 121/138 Use of uninitialized value $png in
substitution (s///) at t/03.render.t line 444.
Use of uninitialized value $png in -e at t/03.render.t line 445.
Use of uninitialized value $png in substitution (s///) at t/03.render.t
line 455.
Use of uninitialized value $png in -e at t/03.render.t line 456.
t/03.render.t ............. Failed 4/138 subtests
t/04.remoteserver.t ....... Failed 5/43 subtests
t/05.deferredrendering.t .. 4/19 Use of uninitialized value in -e at
t/05.deferredrendering.t line 148.
t/05.deferredrendering.t .. Failed 2/19 subtests
t/06.featuresearch.t ...... ok
t/07.karyotype.t .......... ok
t/08.calign.t ............. ok

Test Summary Report
-------------------
t/03.render.t           (Wstat: 0 Tests: 138 Failed: 4)
 Failed tests:  122-123, 125-126
t/04.remoteserver.t     (Wstat: 0 Tests: 39 Failed: 1)
 Failed test:  39
 Parse errors: Bad plan.  You planned 43 tests but ran 39.
t/05.deferredrendering.t (Wstat: 0 Tests: 19 Failed: 2)
 Failed tests:  16-17
Files=8, Tests=328, 22 wallclock secs ( 0.07 usr  0.02 sys +  9.73 cusr
2.51 csys = 12.33 CPU)
Result: FAIL
Failed 3/8 test programs. 7/328 subtests failed.
 LDS/GBrowse-2.08.tar.gz
 ./Build test -- NOT OK
//hint// to see the cpan-testers results for installing this module,
try:
 reports LDS/GBrowse-2.08.tar.gz
Running Build install
 make test had returned bad status, won't install without force
Failed during this command:
 LDS/GBrowse-2.08.tar.gz                      : make_test NO

=====================================================



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Re: a problem of installing GBrowse 2

Scott Cain
Oh, I figured that the problems went away, since 15 minutes after he
sent this email, he sent an email with a question about configuring
GBrowse2.  Zhuang, if that assumption is incorrect, please let us
know.

Scott


On Wed, Jun 9, 2010 at 6:34 PM, Dave Clements, GMOD Help Desk
<[hidden email]> wrote:

> Hi Zhuangchao,
> I'm sorry this problem hasn't gone away since you first reported it in
> April.
>  (See http://old.nabble.com/a-problem-of-installing--GBrowse-2-to28263996.html#a28263996
> for that thread.)
> It looks like the number of failed tests in render.t have dropped from 6 to
> 4 (tests 127 & 128 now pass), but I don't know why.  The most likely source
> of these errors is a problem with GD, but I'm not sure of that.
> Does anyone have more concrete suggestions?
> Dave C.
> On Tue, Jun 8, 2010 at 2:00 AM, zhuangchao <[hidden email]> wrote:
>>
>> I installed  GBrowse 2 by running the CPAN shell.
>>
>> I get the following error message . How can I solve
>>
>> the problem. Thank you very much!
>>
>> ===========================================
>> cpan[4]> install Bio::Graphics::Browser2
>> Running install for module 'Bio::Graphics::Browser2'
>> Running Build for L/LD/LDS/GBrowse-2.08.tar.gz
>>  Has already been unwrapped into
>> directory /root/.cpan/build/GBrowse-2.08-S1aBIH
>>  Has already been made
>> Running Build test
>> NOTE: Run ./Build reconfig to change existing configuration.
>> t/01yeast.t ............... ok
>> t/02.rearchitecture.t ..... ok
>> t/03.render.t ............. 121/138 Use of uninitialized value $png in
>> substitution (s///) at t/03.render.t line 444.
>> Use of uninitialized value $png in -e at t/03.render.t line 445.
>> Use of uninitialized value $png in substitution (s///) at t/03.render.t
>> line 455.
>> Use of uninitialized value $png in -e at t/03.render.t line 456.
>> t/03.render.t ............. Failed 4/138 subtests
>> t/04.remoteserver.t ....... Failed 5/43 subtests
>> t/05.deferredrendering.t .. 4/19 Use of uninitialized value in -e at
>> t/05.deferredrendering.t line 148.
>> t/05.deferredrendering.t .. Failed 2/19 subtests
>> t/06.featuresearch.t ...... ok
>> t/07.karyotype.t .......... ok
>> t/08.calign.t ............. ok
>>
>> Test Summary Report
>> -------------------
>> t/03.render.t           (Wstat: 0 Tests: 138 Failed: 4)
>>  Failed tests:  122-123, 125-126
>> t/04.remoteserver.t     (Wstat: 0 Tests: 39 Failed: 1)
>>  Failed test:  39
>>  Parse errors: Bad plan.  You planned 43 tests but ran 39.
>> t/05.deferredrendering.t (Wstat: 0 Tests: 19 Failed: 2)
>>  Failed tests:  16-17
>> Files=8, Tests=328, 22 wallclock secs ( 0.07 usr  0.02 sys +  9.73 cusr
>> 2.51 csys = 12.33 CPU)
>> Result: FAIL
>> Failed 3/8 test programs. 7/328 subtests failed.
>>  LDS/GBrowse-2.08.tar.gz
>>  ./Build test -- NOT OK
>> //hint// to see the cpan-testers results for installing this module,
>> try:
>>  reports LDS/GBrowse-2.08.tar.gz
>> Running Build install
>>  make test had returned bad status, won't install without force
>> Failed during this command:
>>  LDS/GBrowse-2.08.tar.gz                      : make_test NO
>>
>> =====================================================
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> ThinkGeek and WIRED's GeekDad team up for the Ultimate
>> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the
>> lucky parental unit.  See the prize list and enter to win:
>> http://p.sf.net/sfu/thinkgeek-promo
>> _______________________________________________
>> Gmod-gbrowse mailing list
>> [hidden email]
>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>
>
>
> --
> ===> PLEASE KEEP RESPONSES ON THE LIST <===
> http://gmod.org/wiki/GMOD_News
> http://gmod.org/wiki/Calendar
> http://gmod.org/wiki/Help_Desk_Feedback
>
>
> ------------------------------------------------------------------------------
> ThinkGeek and WIRED's GeekDad team up for the Ultimate
> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the
> lucky parental unit.  See the prize list and enter to win:
> http://p.sf.net/sfu/thinkgeek-promo
> _______________________________________________
> Gmod-gbrowse mailing list
> [hidden email]
> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>
>



--
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   scott at scottcain dot net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research

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ThinkGeek and WIRED's GeekDad team up for the Ultimate
GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the
lucky parental unit.  See the prize list and enter to win:
http://p.sf.net/sfu/thinkgeek-promo
_______________________________________________
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