date:20161019

[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

2016-10-19 Thread Jean-Christophe Ducom

I do not see the step where VERSION file has to be modified (replace space 
with dot) after 'make pwiz-msi' fails
Hope that helps
JC


On Wednesday, October 19, 2016 at 10:10:17 AM UTC-7, Ali wrote:
>
> Dear Jean Christophe
>
> We are still having issue with the installation. After applying your 
> solution he is now getting the following error:
>
> *[root@nkr-rc-neu TPP_5.0.0-src]# mkdir -p ./extern/ProteoWizard/pwiz-msi*
>
> *[root@nkr-rc-neu TPP_5.0.0-src]# make pwiz-msi*
>
> */root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: overriding 
> commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>
> *common.mk:448 : warning: ignoring old commands for 
> target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>
> *rm -f /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION*
>
> *wget -nv -O 
> /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION 
> https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION\?guest=1
>  
> *
>
> *2016-10-19 12:28:37 
> URL:https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION?guest=1
>  
> 
>  [9/9] 
> -> "/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION" [1]*
>
> *rm -f pwiz-setup-*-x86_64.msi*
>
> *wget --content-disposition -nv -P 
> /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi \*
>
> *
>
> https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/pwiz-setup-3
>  
> 
>  0 
> 10107-x86_64.msi\?guest=1*
>
> *Authorization failed.*
>
> *wget: unable to resolve host address “10107-x86_64.msi”*
>
> *make: *** [pwiz-msi] Error 4*
>
> *[root@nkr-rc-neu TPP_5.0.0-src]# vi ./extern/ProteoWizard/Makefile*
>
> *[root@nkr-rc-neu TPP_5.0.0-src]# make all*
>
> */root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: overriding 
> commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>
> *common.mk:448 : warning: ignoring old commands for 
> target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>
> *cp /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/ 
> /root/TPP_5.0.0-src/build/linux-x86_64*
>
> *cp: omitting directory 
> `/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/'*
>
> *make: *** [/root/TPP_5.0.0-src/build/linux-x86_64] Error 1*
>
> *[root@nkr-rc-neu TPP_5.0.0-src]#*
>
>
> Do you know what should we do now?
>
>
> Many Thanks.
>
>
> Sincerely,
>
>
> Ali
>
> On Wednesday, October 19, 2016 at 2:38:56 AM UTC-4, Jean-Christophe Ducom 
> wrote:
>>
>> I had same issues few days ago. I went thru scripts and saw some issues 
>> with  pwiz-msi.
>> Here is my workaround
>> cd TPP_5.0.0-src
>>
>> mkdir -p ./extern/ProteoWizard/pwiz-msi
>>
>> make pwiz-msi
>>
>> That will download file VERSION. However the format is not good as it has 
>> spaces instead of dot)
>>
>> vi ./extern/ProteoWizard/pwiz-msi/VERSION 
>>
>> 3.0.10095
>>
>>
>> Now you need to change Makefile so that it doesn't download VERSION 
>> anymore by commenting the following lines:
>>
>> vi ./extern/ProteoWizard/Makefile
>>
>> pwiz-msi-version :
>>
>> #rm -f $(PWIZ_MSIDIR)/VERSION
>>
>> #wget -nv -O $(PWIZ_MSIDIR)/VERSION $(PWIZ_TCMSI)/VERSION\?guest=1
>>
>>
>> Then you should be good to go
>>
>> make all
>>
>>
>> Hope that helps
>> JC
>>
>> On Monday, October 17, 2016 at 10:51:36 AM UTC-7, Ali wrote:
>>>
>>> Dear all
>>>
>>> Our cluster administrator is getting the following error on Centos 
>>> Linux x86_84 when he wants to install TPP v5.0. Does any one know what 
>>> might be the problem and how can we fix the issue?
>>>
>>>
>>> [root@compute-0-000 TPP_5.0.0-src]# make all
>>>
>>> /shared/apps/TPP/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: 
>>> warning: overriding commands for target `/shared/apps/TPP/TPP_5.0.0-
>>> src/build/linux-x86_64'
>>>
>>> common.mk:449: warning: ignoring old commands for target 
>>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'
>>>
>>> make: *** No rule to make target `/shared/apps/TPP/TPP_5.0.0-
>>> src/extern/ProteoWizard/pwiz-msi', needed by 
>>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'.  Stop.
>>>
>>> [root@compute-0-000 TPP_5.0.0-src]#
>>>
>>>
>>> Some packages did not get downloaded with the source code ...?
>>>
>>>
>>> Thank you very much,
>>> Ali 
>>>
>>

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[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

2016-10-19 Thread Jean-Christophe Ducom

I had same issues few days ago. I went thru scripts and saw some issues 
with  pwiz-msi.
Here is my workaround
cd TPP_5.0.0-src

mkdir -p ./extern/ProteoWizard/pwiz-msi

make pwiz-msi

That will download file VERSION. However the format is not good as it has 
spaces instead of dot)

vi ./extern/ProteoWizard/pwiz-msi/VERSION 

3.0.10095


Now you need to change Makefile so that it doesn't download VERSION anymore 
by commenting the following lines:

vi ./extern/ProteoWizard/Makefile

pwiz-msi-version :

#rm -f $(PWIZ_MSIDIR)/VERSION

#wget -nv -O $(PWIZ_MSIDIR)/VERSION $(PWIZ_TCMSI)/VERSION\?guest=1


Then you should be good to go

make all


Hope that helps
JC

On Monday, October 17, 2016 at 10:51:36 AM UTC-7, Ali wrote:
>
> Dear all
>
> Our cluster administrator is getting the following error on Centos Linux 
> x86_84 when he wants to install TPP v5.0. Does any one know what might be 
> the problem and how can we fix the issue?
>
>
> [root@compute-0-000 TPP_5.0.0-src]# make all
>
> /shared/apps/TPP/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: 
> overriding commands for target `/shared/apps/TPP/TPP_5.0.0-
> src/build/linux-x86_64'
>
> common.mk:449: warning: ignoring old commands for target 
> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'
>
> make: *** No rule to make target `/shared/apps/TPP/TPP_5.0.0-
> src/extern/ProteoWizard/pwiz-msi', needed by 
> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'.  
> Stop.
>
> [root@compute-0-000 TPP_5.0.0-src]#
>
>
> Some packages did not get downloaded with the source code ...?
>
>
> Thank you very much,
> Ali 
>

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[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

2016-10-19 Thread Ali

Dear Jean Christophe

He has done those steps. This was what he was getting afterwards. Thanks 
again for your help!

Sincerely,
Ali

On Wednesday, October 19, 2016 at 3:35:37 PM UTC-4, Jean-Christophe Ducom 
wrote:
>
> I do not see the step where VERSION file has to be modified (replace space 
> with dot) after 'make pwiz-msi' fails
> Hope that helps
> JC
>
>
> On Wednesday, October 19, 2016 at 10:10:17 AM UTC-7, Ali wrote:
>>
>> Dear Jean Christophe
>>
>> We are still having issue with the installation. After applying your 
>> solution he is now getting the following error:
>>
>> *[root@nkr-rc-neu TPP_5.0.0-src]# mkdir -p ./extern/ProteoWizard/pwiz-msi*
>>
>> *[root@nkr-rc-neu TPP_5.0.0-src]# make pwiz-msi*
>>
>> */root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: 
>> overriding commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>>
>> *common.mk:448 : warning: ignoring old commands 
>> for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>>
>> *rm -f /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION*
>>
>> *wget -nv -O 
>> /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION 
>> https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION\?guest=1
>>  
>> *
>>
>> *2016-10-19 12:28:37 
>> URL:https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION?guest=1
>>  
>> 
>>  [9/9] 
>> -> "/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION" [1]*
>>
>> *rm -f pwiz-setup-*-x86_64.msi*
>>
>> *wget --content-disposition -nv -P 
>> /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi \*
>>
>> *
>>
>> https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/pwiz-setup-3
>>  
>> 
>>  0 
>> 10107-x86_64.msi\?guest=1*
>>
>> *Authorization failed.*
>>
>> *wget: unable to resolve host address “10107-x86_64.msi”*
>>
>> *make: *** [pwiz-msi] Error 4*
>>
>> *[root@nkr-rc-neu TPP_5.0.0-src]# vi ./extern/ProteoWizard/Makefile*
>>
>> *[root@nkr-rc-neu TPP_5.0.0-src]# make all*
>>
>> */root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: 
>> overriding commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>>
>> *common.mk:448 : warning: ignoring old commands 
>> for target `/root/TPP_5.0.0-src/build/linux-x86_64'*
>>
>> *cp /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/ 
>> /root/TPP_5.0.0-src/build/linux-x86_64*
>>
>> *cp: omitting directory 
>> `/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/'*
>>
>> *make: *** [/root/TPP_5.0.0-src/build/linux-x86_64] Error 1*
>>
>> *[root@nkr-rc-neu TPP_5.0.0-src]#*
>>
>>
>> Do you know what should we do now?
>>
>>
>> Many Thanks.
>>
>>
>> Sincerely,
>>
>>
>> Ali
>>
>> On Wednesday, October 19, 2016 at 2:38:56 AM UTC-4, Jean-Christophe Ducom 
>> wrote:
>>>
>>> I had same issues few days ago. I went thru scripts and saw some issues 
>>> with  pwiz-msi.
>>> Here is my workaround
>>> cd TPP_5.0.0-src
>>>
>>> mkdir -p ./extern/ProteoWizard/pwiz-msi
>>>
>>> make pwiz-msi
>>>
>>> That will download file VERSION. However the format is not good as it 
>>> has spaces instead of dot)
>>>
>>> vi ./extern/ProteoWizard/pwiz-msi/VERSION 
>>>
>>> 3.0.10095
>>>
>>>
>>> Now you need to change Makefile so that it doesn't download VERSION 
>>> anymore by commenting the following lines:
>>>
>>> vi ./extern/ProteoWizard/Makefile
>>>
>>> pwiz-msi-version :
>>>
>>> #rm -f $(PWIZ_MSIDIR)/VERSION
>>>
>>> #wget -nv -O $(PWIZ_MSIDIR)/VERSION 
>>> $(PWIZ_TCMSI)/VERSION\?guest=1
>>>
>>>
>>> Then you should be good to go
>>>
>>> make all
>>>
>>>
>>> Hope that helps
>>> JC
>>>
>>> On Monday, October 17, 2016 at 10:51:36 AM UTC-7, Ali wrote:

 Dear all

 Our cluster administrator is getting the following error on Centos 
 Linux x86_84 when he wants to install TPP v5.0. Does any one know what 
 might be the problem and how can we fix the issue?


 [root@compute-0-000 TPP_5.0.0-src]# make all

 /shared/apps/TPP/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: 
 warning: overriding commands for target `/shared/apps/TPP/TPP_5.0.0-
 src/build/linux-x86_64'

 common.mk:449: warning: ignoring old commands for target 
 `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'

 make: *** No rule to make target `/shared/apps/TPP/TPP_5.0.0-
 src/extern/ProteoWizard/pwiz-msi', needed by 
 `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'.  Stop.

 [root@compute-0-000 TPP_5.0.0-src]#


 Some packages did not get downloaded with the source code ...?


 Thank you very much,
 Ali 

>>>

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[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

2016-10-19 Thread Ali

Thank you so much Jean Christophe!

I will forward your instructions to him.

Sincerely,

Ali

On Wednesday, October 19, 2016 at 2:38:56 AM UTC-4, Jean-Christophe Ducom 
wrote:
>
> I had same issues few days ago. I went thru scripts and saw some issues 
> with  pwiz-msi.
> Here is my workaround
> cd TPP_5.0.0-src
>
> mkdir -p ./extern/ProteoWizard/pwiz-msi
>
> make pwiz-msi
>
> That will download file VERSION. However the format is not good as it has 
> spaces instead of dot)
>
> vi ./extern/ProteoWizard/pwiz-msi/VERSION 
>
> 3.0.10095
>
>
> Now you need to change Makefile so that it doesn't download VERSION 
> anymore by commenting the following lines:
>
> vi ./extern/ProteoWizard/Makefile
>
> pwiz-msi-version :
>
> #rm -f $(PWIZ_MSIDIR)/VERSION
>
> #wget -nv -O $(PWIZ_MSIDIR)/VERSION $(PWIZ_TCMSI)/VERSION\?guest=1
>
>
> Then you should be good to go
>
> make all
>
>
> Hope that helps
> JC
>
> On Monday, October 17, 2016 at 10:51:36 AM UTC-7, Ali wrote:
>>
>> Dear all
>>
>> Our cluster administrator is getting the following error on Centos Linux 
>> x86_84 when he wants to install TPP v5.0. Does any one know what might 
>> be the problem and how can we fix the issue?
>>
>>
>> [root@compute-0-000 TPP_5.0.0-src]# make all
>>
>> /shared/apps/TPP/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: 
>> warning: overriding commands for target `/shared/apps/TPP/TPP_5.0.0-
>> src/build/linux-x86_64'
>>
>> common.mk:449: warning: ignoring old commands for target 
>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'
>>
>> make: *** No rule to make target `/shared/apps/TPP/TPP_5.0.0-
>> src/extern/ProteoWizard/pwiz-msi', needed by 
>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'.  
>> Stop.
>>
>> [root@compute-0-000 TPP_5.0.0-src]#
>>
>>
>> Some packages did not get downloaded with the source code ...?
>>
>>
>> Thank you very much,
>> Ali 
>>
>

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[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

2016-10-19 Thread Ali

Dear Jean Christophe

We are still having issue with the installation. After applying your 
solution he is now getting the following error:

*[root@nkr-rc-neu TPP_5.0.0-src]# mkdir -p ./extern/ProteoWizard/pwiz-msi*

*[root@nkr-rc-neu TPP_5.0.0-src]# make pwiz-msi*

*/root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: overriding 
commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*

*common.mk:448 : warning: ignoring old commands for 
target `/root/TPP_5.0.0-src/build/linux-x86_64'*

*rm -f /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION*

*wget -nv -O 
/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION 
https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION\?guest=1
 
*

*2016-10-19 12:28:37 
URL:https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/VERSION?guest=1
 

 [9/9] 
-> "/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/VERSION" [1]*

*rm -f pwiz-setup-*-x86_64.msi*

*wget --content-disposition -nv -P 
/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi \*

*
   
https://teamcity.labkey.org/repository/download/bt83/.lastSuccessful/pwiz-setup-3
 

 0 
10107-x86_64.msi\?guest=1*

*Authorization failed.*

*wget: unable to resolve host address “10107-x86_64.msi”*

*make: *** [pwiz-msi] Error 4*

*[root@nkr-rc-neu TPP_5.0.0-src]# vi ./extern/ProteoWizard/Makefile*

*[root@nkr-rc-neu TPP_5.0.0-src]# make all*

*/root/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: warning: overriding 
commands for target `/root/TPP_5.0.0-src/build/linux-x86_64'*

*common.mk:448 : warning: ignoring old commands for 
target `/root/TPP_5.0.0-src/build/linux-x86_64'*

*cp /root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/ 
/root/TPP_5.0.0-src/build/linux-x86_64*

*cp: omitting directory `/root/TPP_5.0.0-src/extern/ProteoWizard/pwiz-msi/'*

*make: *** [/root/TPP_5.0.0-src/build/linux-x86_64] Error 1*

*[root@nkr-rc-neu TPP_5.0.0-src]#*


Do you know what should we do now?


Many Thanks.


Sincerely,


Ali

On Wednesday, October 19, 2016 at 2:38:56 AM UTC-4, Jean-Christophe Ducom 
wrote:
>
> I had same issues few days ago. I went thru scripts and saw some issues 
> with  pwiz-msi.
> Here is my workaround
> cd TPP_5.0.0-src
>
> mkdir -p ./extern/ProteoWizard/pwiz-msi
>
> make pwiz-msi
>
> That will download file VERSION. However the format is not good as it has 
> spaces instead of dot)
>
> vi ./extern/ProteoWizard/pwiz-msi/VERSION 
>
> 3.0.10095
>
>
> Now you need to change Makefile so that it doesn't download VERSION 
> anymore by commenting the following lines:
>
> vi ./extern/ProteoWizard/Makefile
>
> pwiz-msi-version :
>
> #rm -f $(PWIZ_MSIDIR)/VERSION
>
> #wget -nv -O $(PWIZ_MSIDIR)/VERSION $(PWIZ_TCMSI)/VERSION\?guest=1
>
>
> Then you should be good to go
>
> make all
>
>
> Hope that helps
> JC
>
> On Monday, October 17, 2016 at 10:51:36 AM UTC-7, Ali wrote:
>>
>> Dear all
>>
>> Our cluster administrator is getting the following error on Centos Linux 
>> x86_84 when he wants to install TPP v5.0. Does any one know what might 
>> be the problem and how can we fix the issue?
>>
>>
>> [root@compute-0-000 TPP_5.0.0-src]# make all
>>
>> /shared/apps/TPP/TPP_5.0.0-src/extern/ProteoWizard/Makefile:353: 
>> warning: overriding commands for target `/shared/apps/TPP/TPP_5.0.0-
>> src/build/linux-x86_64'
>>
>> common.mk:449: warning: ignoring old commands for target 
>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'
>>
>> make: *** No rule to make target `/shared/apps/TPP/TPP_5.0.0-
>> src/extern/ProteoWizard/pwiz-msi', needed by 
>> `/shared/apps/TPP/TPP_5.0.0-src/build/linux-x86_64'.  
>> Stop.
>>
>> [root@compute-0-000 TPP_5.0.0-src]#
>>
>>
>> Some packages did not get downloaded with the source code ...?
>>
>>
>> Thank you very much,
>> Ali 
>>
>

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[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

[spctools-discuss] Re: TPP v5.0 Installation Error on Linux

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