Error given 32512

error given 32512

Method 1 - Close Conflicting Programs When you get a runtime error, keep in mind that it is happening due to programs that are conflicting with each other. What 127 means is unclear, which is why it should accompanied by an error message. You tried to execute program ls | wc, but there is no such program. * The. I also tried using the subprocess command but it gave the same 32512 return code. Could anyone help me out on what's wrong with this?

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Error given 32512 - the

How to fix the Runtime Code 32512 Microsoft Access Error 32512

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non-zero exit code: 32512

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CH

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Apr 7, 2007, 3:28:55 AM4/7/07

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to spctools-discuss

I'm trying to run ProteinProphet and ASAPRatio

Error with trying to run ProteinProphet:
ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the
original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703291728)
(xml input) (using degen pep info)
error opening /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/
3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/Inetpub/wwwroot/ISB/
data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml
Error: No database referenced by /cygdrive/c/Inetpub/wwwroot/ISB/data/
tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/
Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/
cn109_silac_c_jl_rh_01.xml


This is the error with ASAPRatio:
command "/usr/bin/ProteinProphet 'quant_interact.xml' 'quant_interact-
prot.xml' XML" exited with non-zero exit code: 32512
QUIT - the job is incomplete

Help on how to troubleshoot or fix this please. Thanks in advance.

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Brian Pratt

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Apr 7, 2007, 3:47:40 AM4/7/07

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to [email protected]

What does your xinteract command line and output log look like?

- Brian

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David Shteynberg

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Apr 7, 2007, 4:57:57 AM4/7/07

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to [email protected]

There have been some recent commit in CVS to fix ProteinProphet memory
issues under certain condition. We have not released a package that
contains these fixes yet. However, you can try to replace your version
of ProteinProphet.exe in /cygdrive/c/cygwin/bin with the recompiled
executable which I posted at the following link:
http://tools.proteomecenter.org/software/ProteinProphet.exe


Let us know if the new binary works for you.

-David

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CH

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Apr 16, 2007, 8:41:24 PM4/16/07

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to spctools-discuss

I apologize for the delay in getting back.

I replaced ProteinProphet with the version you provided.

Here is the error:
cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
Light/1118H8pm_01.xml
--------------------------------------------------------------------------------


/usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
1118H8pm_01.xml'"
file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
H8PM_111805/Light/1118H8pm_01.xml
processed altogether 4074 results


results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
\H8PM_111805\interact.xml

direct your browser to http://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interact.shtml

command completed in 15 sec

running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
EXTRAITRS=20"
(SEQUEST)
init with SEQUEST trypsin
MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
Ionization: ESI, Analyzer: Ion Trap, Detector: EMT

PeptideProphet v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
200703291728) [email protected]
read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
model complete after 25 iterations
command completed in 13 sec

running: "/usr/bin/DatabaseParser 'interact.xml'"
command completed in 0 sec

running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
\ipi.HUMAN.v3.23.fasta'"
- Building Commentz-Walter keyword tree... - Searching the tree...
- Linking duplicate entries... - Printing results...

command completed in 20 sec

running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
XML"


ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


(xml input) (using degen pep info)

. . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
adenokfive/H8PM_111805/interact.xml. . .
. . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05
sh: c:/inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
directory
c:/inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/
Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
prot.xml" 335 failed with code 32512

command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


XML" exited with non-zero exit code: 32512
QUIT - the job is incomplete

Any help would be appreciated!

Thank you!


On Apr 6, 4:57 pm, "David Shteynberg" <[email protected]>
wrote:

> Help on how to troubleshoot or fix this please. Thanks in advance.- Hide quoted text -
>
> - Show quoted text -

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Joshua Tasman

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Apr 16, 2007, 11:20:27 PM4/16/07

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to [email protected]

The problem you're seeing now has nothing to do with the ProteinProphet
memory issue. It looks like you're missing a file that ProteinProphet
relies on for conversion of protXML to html, perhaps due to an
incomplete installation?

> sh: c:/inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
> directory

Perhaps you should save the newer version of ProteinProphet, reinstall
the tools, and copy over the new ProteinProphet program again.

Josh

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CH

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Apr 17, 2007, 1:46:25 AM4/17/07

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to spctools-discuss

I did what was suggested. By reinstalling do you mean downloading and
running setup.exe again? If so, I did that and I have the same
problem with the same error.

Would it help if I told you we had version 2.9.2 installed before
updating with version 3.0.0 without installing any of the versions in
between 2.9.2 and 3.0.0?

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Joshua Tasman

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Apr 17, 2007, 3:41:40 AM4/17/07

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Yes, that's correct, I did mean running setup.exe again. (You actually
don't have to re-download it, as it gets the actually installation files
from our server.) Can you clarify which error you're referring to? Do
you mean the missing file I'd mentioned today, or a ProteinProphet
error? In the message you'd copied most recently, I see

Error: No database referenced by
/cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml
/cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml

Which sounds like your database is not accessable or not specified
correctly.

You shouldn't need to install any intermediate versions, although it is
possible that you've helped to reveal a bug that somehow doesn't come up
unless you skip those installations. We'll keep trying to figure it out.


Josh

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CH

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Apr 17, 2007, 9:08:34 PM4/17/07

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Hmm. I didn't notice the different errors. I tried running Protein
Prophet and ASAPRatio again on the exact files that produced the
database error and I haven't seen it again. I do see the
protxml2html.plerrors. I've entered the log files below. When
running setup.exe again I get a window that pops up and say Nothing
needed to be installed.

With running Protein Prophet only I get:


cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
Light/1118H8pm_01.xml
--------------------------------------------------------------------------------


/usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
1118H8pm_01.xml'"
file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
H8PM_111805/Light/1118H8pm_01.xml
processed altogether 4074 results


results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
\H8PM_111805\interact.xml

command completed in 14 sec

running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
EXTRAITRS=20"
(SEQUEST)
init with SEQUEST trypsin
MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
Ionization: ESI, Analyzer: Ion Trap, Detector: EMT

PeptideProphet v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
200703291728) [email protected]
read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
model complete after 25 iterations

command completed in 12 sec

running: "/usr/bin/DatabaseParser 'interact.xml'"
command completed in 0 sec

running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
\ipi.HUMAN.v3.23.fasta'"
- Building Commentz-Walter keyword tree... - Searching the tree...
- Linking duplicate entries... - Printing results...

command completed in 19 sec

running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
XML"

ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


(xml input) (using degen pep info)

. . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
adenokfive/H8PM_111805/interact.xml. . .
. . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05

sh: c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
directory
c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/


Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
prot.xml" 335 failed with code 32512

command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


XML" exited with non-zero exit code: 32512
QUIT - the job is incomplete

Command FAILED

This is what I see when running ProteinProphet with ASAPRatio.
cd /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM; /usr/bin/xinteract -
Ninteract.xml -p0.05 -x20 -Op -A-lKL-r0.5-S-mK128.1741L113.1594 /
cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml /
cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml
--------------------------------------------------------------------------------


/usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml' '/cygdrive/c/Inetpub/
wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml'"
file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/
0524pm_01.xml
file 2: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/
0524pm_01.xml
processed altogether 1830 results


results written to file c:\Inetpub\wwwroot\ISB\data\0524K5PM
\interact.xml

direct your browser to http://localhost:1441/ISB/data/0524K5PM/interact.shtml

command completed in 8 sec

running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
EXTRAITRS=20"
(SEQUEST)
init with SEQUEST trypsin


--------------------------------------------------------------------------------
...skipping 317 lines of output...
--------------------------------------------------------------------------------


running: "/usr/bin/DatabaseParser 'interact.xml'"
command completed in 0 sec

running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database

\66uniprot_sprot_human_eric.fasta'"


- Building Commentz-Walter keyword tree... - Searching the tree...
- Linking duplicate entries... - Printing results...

command completed in 9 sec

running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
XML"

ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


(xml input) (using degen pep info)

. . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/
interact.xml. . .
. . . read in 15 1+, 195 2+, and 171 3+ spectra with min prob 0.05
sh: c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
directory
c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/
Inetpub/wwwroot/ISB/data/0524K5PM/interact-prot.xml" 263 failed with
code 32512

command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


XML" exited with non-zero exit code: 32512
QUIT - the job is incomplete

Command FAILED

Thanks again for your help.

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Joshua Tasman

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Apr 17, 2007, 10:46:43 PM4/17/07

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Thanks for explaining and posting the detailed logs. I still believe
this is a corrupted installation. Rereun the cygwin setup program, and
when you get to the "Select Packages" pane, expand "Base", find
"ISB-MS-Tools" (should be the first entry), and click "Keep" until it
cycles to "Reinstall", then proceed as usual.


Josh

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CH

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Apr 17, 2007, 11:26:13 PM4/17/07

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It looks like it worked (yay!). Thanks for the detailed directions
you gave me and patience for someone who isn't very computer-savvy.

> > direct your browser tohttp://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interac...

> > direct your browser tohttp://localhost:1441/ISB/data/0524K5PM/interact.shtml

Why Child Process Returns Exit Status 32512 In Unix


takes a path to an executable, and arguments with which to launch that executable. It doesn't take bourne shell commands.


is a bourne shell command (among others), and it can't be broken down into the path to an executable and some arguments due to the use of a pipe. This means it can't be executed using .


To execute a bourne shell command using , one has to execute and pass and the command for arguments.


So you want to execute using .



You apparently tried



That would be the same as bourne shell command .


And both are very different than shell command . That would be



You seem to think and are passed to the , but that's not the case at all. is a special character which results in a pipe, not an argument.




As for the exit code,



32512 = 0x7F00


So it didn't die from a signal, a core dump wasn't produced, and it exited with code 127 (0x7F).


What 127 means is unclear, which is why it should accompanied by an error message. You tried to execute program , but there is no such program.


Browser returned error code 32512 #800

Sorry for the delay on my end as well, I got a bit lazy these past few days and let stuff slide ._.

Okay, so the issue boils down to this line:

https://github.com/meribold/dotfiles/blob/4c158fe58ee772171f4dbf42b64564b8f93ba3b1/home/config/newsboat/config#L4

The intent here is to spawn a job in the background, and this line does that, but then the shell has no more commands to run, so it finishes. But since it still has a job running in the background, it returns a non-zero exit code, which is what Newsboat displays.

My recommended solution is:

What's going on here?

  1. executes in BASH.

    This is important, since the command uses BASH-specific and . By default, setting uses , which only guarantees POSIX features, and even though in practice often points to BASH, it doesn't always—e.g. on Debian and Ubuntu it points to Dash.

  2. runs with "fake" , , and . That isolates from the terminal it was started from. It doesn't run the in the background though.

  3. redirects and to —i.e. it ignores all text output and all errors. This is necessary in order to prevent from redirecting that output to a file called .

  4. starts the in the background. Note that it doesn't completely detach from the current shell—it only makes it so we can run more commands.

  5. detaches all the background jobs from current shell, so it stops caring about them.

I'm probably going to turn this comment into a FAQ item, so if anything is unclear, please tell me so I can fix it.

I think this resolves the issue, so I'm closing it now.

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    1. Is the script being invoked in the post-session with the full path?
    2. Insice this script you are calling create_interface_file.ksh. You need
    to specify the full path of create_interface_file.ksh here also.

    Please let me know is this helps



    "deeraj via
    informatica-l"
    oups.ITtoolbox.co vashok
    m> cc

    08/24/2006 09:42 Subject
    AM [informatica-l] Error while
    executing unix script (32512) as
    post session command
    Please respond to
    [email protected]
    ups.ITtoolbox.com









    Hi,

    The error is "Error executing shell command [/path/file.sh].
    Return code is [32512]." The script is in turn calling another
    script inside and I think thats where the problem is lying. I
    tried executing the script directly in the unix box and its
    working fine. Can someone help on this? Hers's what the script
    is doing:


    #!/usr/bin/ksh
    DATETIME=`date +%m%d%Y`
    FILENAME=DAILY_PROCESS_FILE
    FILEN=$FILENAME$DATETIME.dat

    create_interface_file.ksh -f
    /etldevmmk1/xxsl/dev/informatica/TgtFiles/$FILEN
    #calls the second script

    Both script files have chmod 777 and owner is same.










    Database:11g Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:10g Release 2
    Error code:ORA-32512
    Description: type "string" is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:11g Release 2
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:12c Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type






    Oracle Database Error Codes Library


    Oracle Database Parameters


    Oracle Database Packages


    Packages list

    Oracle Database Data Dictionary

    error given 32512

    Error given 32512 - opinion obvious

    How to fix the Runtime Code 32512 Microsoft Access Error 32512

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    Read these next...

    1. Is the script being invoked in the post-session with the full path?
    2. Insice this script you are calling create_interface_file.ksh. You need
    to specify the full path of create_interface_file.ksh here also.

    Please let me know is this helps



    "deeraj via
    informatica-l"
    oups.ITtoolbox.co vashok
    m> cc

    08/24/2006 09:42 Subject
    AM [informatica-l] Error while
    executing unix script (32512) as
    post session command
    Please respond to
    [email protected]
    ups.ITtoolbox.com









    Hi,

    The error is "Error executing shell command [/path/file.sh].
    Return code is [32512]." The script is in turn calling another
    script inside and I think thats where the problem is lying. I
    tried executing the script directly in the unix box and its
    working fine. Can someone help on this? Hers's what the script
    is doing:


    #!/usr/bin/ksh
    DATETIME=`date +%m%d%Y`
    FILENAME=DAILY_PROCESS_FILE
    FILEN=$FILENAME$DATETIME.dat

    create_interface_file.ksh -f
    /etldevmmk1/xxsl/dev/informatica/TgtFiles/$FILEN
    #calls the second script

    Both script files have chmod 777 and owner is same.










    non-zero exit code: 32512

    CH's profile photo

    CH

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    Apr 7, 2007, 3:28:55 AM4/7/07

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    to spctools-discuss

    I'm trying to run ProteinProphet and ASAPRatio

    Error with trying to run ProteinProphet:
    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the
    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703291728)
    (xml input) (using degen pep info)
    error opening /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/
    3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/Inetpub/wwwroot/ISB/
    data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml
    Error: No database referenced by /cygdrive/c/Inetpub/wwwroot/ISB/data/
    tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/
    Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/
    cn109_silac_c_jl_rh_01.xml


    This is the error with ASAPRatio:
    command "/usr/bin/ProteinProphet 'quant_interact.xml' 'quant_interact-
    prot.xml' XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Help on how to troubleshoot or fix this please. Thanks in advance.

    Brian Pratt's profile photo

    Brian Pratt

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    Apr 7, 2007, 3:47:40 AM4/7/07

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    to [email protected]

    What does your xinteract command line and output log look like?

    - Brian

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    David Shteynberg

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    Apr 7, 2007, 4:57:57 AM4/7/07

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    to [email protected]

    There have been some recent commit in CVS to fix ProteinProphet memory
    issues under certain condition. We have not released a package that
    contains these fixes yet. However, you can try to replace your version
    of ProteinProphet.exe in /cygdrive/c/cygwin/bin with the recompiled
    executable which I posted at the following link:
    http://tools.proteomecenter.org/software/ProteinProphet.exe


    Let us know if the new binary works for you.

    -David

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    CH

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    Apr 16, 2007, 8:41:24 PM4/16/07

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    to spctools-discuss

    I apologize for the delay in getting back.

    I replaced ProteinProphet with the version you provided.

    Here is the error:
    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
    cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
    Light/1118H8pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
    1118H8pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805/Light/1118H8pm_01.xml
    processed altogether 4074 results


    results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
    \H8PM_111805\interact.xml

    direct your browser to http://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interact.shtml

    command completed in 15 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init with SEQUEST trypsin
    MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
    Ionization: ESI, Analyzer: Ion Trap, Detector: EMT

    PeptideProphet v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
    200703291728) [email protected]
    read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
    model complete after 25 iterations
    command completed in 13 sec

    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
    \ipi.HUMAN.v3.23.fasta'"
    - Building Commentz-Walter keyword tree... - Searching the tree...
    - Linking duplicate entries... - Printing results...

    command completed in 20 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"


    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
    adenokfive/H8PM_111805/interact.xml. . .
    . . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05
    sh: c:/inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
    directory
    c:/inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/
    Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
    prot.xml" 335 failed with code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Any help would be appreciated!

    Thank you!


    On Apr 6, 4:57 pm, "David Shteynberg" <[email protected]>
    wrote:

    > Help on how to troubleshoot or fix this please. Thanks in advance.- Hide quoted text -
    >
    > - Show quoted text -

    Joshua Tasman's profile photo

    Joshua Tasman

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    Apr 16, 2007, 11:20:27 PM4/16/07

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    to [email protected]

    The problem you're seeing now has nothing to do with the ProteinProphet
    memory issue. It looks like you're missing a file that ProteinProphet
    relies on for conversion of protXML to html, perhaps due to an
    incomplete installation?

    > sh: c:/inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
    > directory

    Perhaps you should save the newer version of ProteinProphet, reinstall
    the tools, and copy over the new ProteinProphet program again.

    Josh

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    CH

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    Apr 17, 2007, 1:46:25 AM4/17/07

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    to spctools-discuss

    I did what was suggested. By reinstalling do you mean downloading and
    running setup.exe again? If so, I did that and I have the same
    problem with the same error.

    Would it help if I told you we had version 2.9.2 installed before
    updating with version 3.0.0 without installing any of the versions in
    between 2.9.2 and 3.0.0?

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    Joshua Tasman

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    Apr 17, 2007, 3:41:40 AM4/17/07

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    to [email protected]


    Yes, that's correct, I did mean running setup.exe again. (You actually
    don't have to re-download it, as it gets the actually installation files
    from our server.) Can you clarify which error you're referring to? Do
    you mean the missing file I'd mentioned today, or a ProteinProphet
    error? In the message you'd copied most recently, I see

    Error: No database referenced by
    /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml
    /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml

    Which sounds like your database is not accessable or not specified
    correctly.

    You shouldn't need to install any intermediate versions, although it is
    possible that you've helped to reveal a bug that somehow doesn't come up
    unless you skip those installations. We'll keep trying to figure it out.


    Josh

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    CH

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    Apr 17, 2007, 9:08:34 PM4/17/07

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    to spctools-discuss

    Hmm. I didn't notice the different errors. I tried running Protein
    Prophet and ASAPRatio again on the exact files that produced the
    database error and I haven't seen it again. I do see the
    protxml2html.plerrors. I've entered the log files below. When
    running setup.exe again I get a window that pops up and say Nothing
    needed to be installed.

    With running Protein Prophet only I get:


    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
    cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
    Light/1118H8pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
    1118H8pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805/Light/1118H8pm_01.xml
    processed altogether 4074 results


    results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
    \H8PM_111805\interact.xml

    command completed in 14 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init with SEQUEST trypsin
    MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
    Ionization: ESI, Analyzer: Ion Trap, Detector: EMT

    PeptideProphet v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
    200703291728) [email protected]
    read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
    model complete after 25 iterations

    command completed in 12 sec

    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
    \ipi.HUMAN.v3.23.fasta'"
    - Building Commentz-Walter keyword tree... - Searching the tree...
    - Linking duplicate entries... - Printing results...

    command completed in 19 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"

    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
    adenokfive/H8PM_111805/interact.xml. . .
    . . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05

    sh: c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
    directory
    c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/


    Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
    prot.xml" 335 failed with code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Command FAILED

    This is what I see when running ProteinProphet with ASAPRatio.
    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM; /usr/bin/xinteract -
    Ninteract.xml -p0.05 -x20 -Op -A-lKL-r0.5-S-mK128.1741L113.1594 /
    cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml /
    cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/
    0524pm_01.xml
    file 2: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/
    0524pm_01.xml
    processed altogether 1830 results


    results written to file c:\Inetpub\wwwroot\ISB\data\0524K5PM
    \interact.xml

    direct your browser to http://localhost:1441/ISB/data/0524K5PM/interact.shtml

    command completed in 8 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init with SEQUEST trypsin


    --------------------------------------------------------------------------------
    ...skipping 317 lines of output...
    --------------------------------------------------------------------------------


    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database

    \66uniprot_sprot_human_eric.fasta'"


    - Building Commentz-Walter keyword tree... - Searching the tree...
    - Linking duplicate entries... - Printing results...

    command completed in 9 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"

    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/
    interact.xml. . .
    . . . read in 15 1+, 195 2+, and 171 3+ spectra with min prob 0.05
    sh: c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl: No such file or
    directory
    c:/Inetpub/wwwroot../tpp-bin/protxml2html.pl -file "/cygdrive/c/
    Inetpub/wwwroot/ISB/data/0524K5PM/interact-prot.xml" 263 failed with
    code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Command FAILED

    Thanks again for your help.

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    Joshua Tasman

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    Apr 17, 2007, 10:46:43 PM4/17/07

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    to [email protected]

    Thanks for explaining and posting the detailed logs. I still believe
    this is a corrupted installation. Rereun the cygwin setup program, and
    when you get to the "Select Packages" pane, expand "Base", find
    "ISB-MS-Tools" (should be the first entry), and click "Keep" until it
    cycles to "Reinstall", then proceed as usual.


    Josh

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    Apr 17, 2007, 11:26:13 PM4/17/07

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    to spctools-discuss

    It looks like it worked (yay!). Thanks for the detailed directions
    you gave me and patience for someone who isn't very computer-savvy.

    > > direct your browser tohttp://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interac...

    > > direct your browser tohttp://localhost:1441/ISB/data/0524K5PM/interact.shtml

    Why Child Process Returns Exit Status 32512 In Unix


    takes a path to an executable, and arguments with which to launch that executable. It doesn't take bourne shell commands.


    is a bourne shell command (among others), and it can't be broken down into the path to an executable and some arguments due to the use of a pipe. This means it can't be executed using .


    To execute a bourne shell command using , one has to execute and pass and the command for arguments.


    So you want to execute using .



    You apparently tried



    That would be the same as bourne shell command .


    And both are very different than shell command . That would be



    You seem to think and are passed to the , but that's not the case at all. is a special character which results in a pipe, not an argument.




    As for the exit code,



    32512 = 0x7F00


    So it didn't die from a signal, a core dump wasn't produced, and it exited with code 127 (0x7F).


    What 127 means is unclear, which is why it should accompanied by an error message. You tried to execute program , but there is no such program.


    Database:11g Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:10g Release 2
    Error code:ORA-32512
    Description: type "string" is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:11g Release 2
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:12c Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type






    Oracle Database Error Codes Library


    Oracle Database Parameters


    Oracle Database Packages


    Packages list

    Oracle Database Data Dictionary

    Read these next.

    1. Is the script being invoked in the post-session with the full path?
    2. Insice this script you are calling create_interface_file.ksh. You need
    to specify the full path of create_interface_file.ksh here also.

    Please let me know is this helps



    "deeraj via
    informatica-l"
    oups.ITtoolbox.co vashok
    m> cc

    08/24/2006 09:42 Subject
    AM [informatica-l] Error while
    executing unix script (32512) as
    post session command
    Please respond to
    [email protected]
    ups.ITtoolbox.com









    Hi,

    The error is "Error executing shell command [/path/file.sh].
    Return code is [32512]." The script is in turn calling another
    script inside and I think thats where the problem is lying. I
    tried executing the script directly in the unix box and its
    working fine, error given 32512. Can someone help on this? Hers's what the script
    is doing:


    #!/usr/bin/ksh
    DATETIME=`date +%m%d%Y`
    FILENAME=DAILY_PROCESS_FILE
    FILEN=$FILENAME$DATETIME.dat

    create_interface_file.ksh -f
    /etldevmmk1/xxsl/dev/informatica/TgtFiles/$FILEN
    #calls the second script

    Both script files have chmod 777 and owner is same.










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  • Browser returned error code 32512 #800

    Sorry for the delay on my end as well, I got a bit lazy these past few days and let stuff slide ._.

    Okay, so the issue boils down to this line:

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    What's going on here?

    1. executes in BASH.

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    3. redirects and to —i.e. it ignores all text output and all errors. This is necessary in order to prevent from redirecting that output to a file called .

    4. starts the in the background. Note that it doesn't completely detach from the current shell—it only makes it so we can run more commands.

    5. detaches all the background jobs from current shell, so it stops caring about them.

    I'm probably going to turn this comment into a FAQ item, so if anything is unclear, please tell me so I can fix it.

    I think this resolves the issue, so I'm closing it now.

    non-zero exit code: 32512

    CH's profile photo

    CH

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    Apr 7, 2007, 3:28:55 AM4/7/07

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    to spctools-discuss

    I'm trying to run ProteinProphet and ASAPRatio

    Error with trying to run ProteinProphet:
    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the
    original Perl by A. Error given 32512 (TPP v3.0 SQUALL rev.0, Build 200703291728)
    (xml input) (using degen pep info)
    error opening /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/
    3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/Inetpub/wwwroot/ISB/
    data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml
    Error: No database referenced by /cygdrive/c/Inetpub/wwwroot/ISB/data/
    tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml /cygdrive/c/
    Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/
    cn109_silac_c_jl_rh_01.xml


    This is the error with ASAPRatio:
    command "/usr/bin/ProteinProphet 'quant_interact.xml' 'quant_interact-
    prot.xml' XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Help on how to troubleshoot or fix this please. Thanks in advance.

    Brian Pratt's profile photo

    Brian Pratt

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    Apr 7, 2007, 3:47:40 AM4/7/07

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    to [email protected]

    What does your xinteract command line and output log look like?

    - Brian

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    David Shteynberg

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    Apr 7, 2007, 4:57:57 AM4/7/07

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    to [email protected]

    There have been some recent commit in CVS to fix ProteinProphet memory
    issues under certain condition, error given 32512. We have not released a package that
    contains these fixes yet. However, error given 32512, you can try to replace your version
    of ProteinProphet.exe in /cygdrive/c/cygwin/bin with the recompiled
    executable which I posted at the following link:
    http://tools.proteomecenter.org/software/ProteinProphet.exe


    Let us know if the new binary works for you.

    -David

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    CH

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    Apr 16, 2007, error given 32512, 8:41:24 PM4/16/07

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    to spctools-discuss

    I apologize for the delay in getting back.

    I replaced ProteinProphet with the version you provided.

    Here is the error:
    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
    cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
    Light/1118H8pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
    1118H8pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805/Light/1118H8pm_01.xml
    processed altogether 4074 results


    results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
    \H8PM_111805\interact.xml

    direct your browser to http://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interact.shtml

    command completed in 15 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init with SEQUEST trypsin
    MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
    Ionization: ESI, Analyzer: Ion Trap, Detector: EMT

    PeptideProphet v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
    200703291728) [email protected]
    read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
    model complete after 25 iterations
    command completed in 13 sec

    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
    \ipi.HUMAN.v3.23.fasta'"
    - Building Commentz-Walter keyword tree. - Searching the tree.
    - Linking duplicate entries. - Printing results.

    command completed in 20 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"


    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
    adenokfive/H8PM_111805/interact.xml. .
    . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05
    sh: c:/inetpub/wwwroot./tpp-bin/protxml2html.pl: No such file or
    directory
    c:/inetpub/wwwroot./tpp-bin/protxml2html.pl -file "/cygdrive/c/
    Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
    prot.xml" 335 failed with code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Any help would be appreciated!

    Thank you!


    On Apr 6, 4:57 pm, "David Shteynberg" <[email protected]>
    wrote:

    > Help on how to troubleshoot or fix this please. Thanks in advance.- Hide quoted text -
    >
    > - Show quoted text -

    Joshua Tasman's profile photo

    Joshua Tasman

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    Apr 16, 2007, 11:20:27 PM4/16/07

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    to [email protected]

    The problem you're seeing now has nothing to do with the ProteinProphet
    memory issue. It looks like you're error given 32512 a file that ProteinProphet
    relies on for conversion of protXML to html, perhaps due to an
    incomplete installation?

    > sh: c:/inetpub/wwwroot./tpp-bin/protxml2html.pl: No such file or
    > directory

    Perhaps you should save the newer version of ProteinProphet, reinstall
    the tools, and copy over the new ProteinProphet program again.

    Josh

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    CH

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    Apr 17, 2007, 1:46:25 AM4/17/07

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    to spctools-discuss

    I did what was suggested. By reinstalling do you mean downloading and
    running setup.exe again? If so, error given 32512, I did that and I have the same
    problem with the same error.

    Would it help if I told you we had version 2.9.2 installed before
    updating with version 3.0.0 without installing any of the versions in
    between 2.9.2 and 3.0.0?

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    Joshua Tasman

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    Apr 17, 2007, 3:41:40 AM4/17/07

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    to [email protected]


    Yes, that's error given 32512, I did mean running setup.exe again, error given 32512. (You actually
    don't have to re-download it, as it gets the actually installation files
    from our server.) Can you clarify which error you're referring to? Do
    you mean the missing file I'd mentioned today, or a ProteinProphet
    error? In the message you'd copied most recently, I see

    Error: No database referenced by
    /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Heavy/cn109_silac_c_jl_rh_01.xml
    /cygdrive/c/Inetpub/wwwroot/ISB/data/tpp_newversiontest/3_0_0/Light/cn109_silac_c_jl_rh_01.xml

    Which sounds like your database is not accessable or not specified
    correctly.

    You shouldn't need to install any intermediate versions, although it is
    possible that you've helped to reveal a bug that somehow doesn't come up
    unless you skip those installations. We'll keep trying to figure it out.


    Josh

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    CH

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    Apr 17, 2007, error given 32512, 9:08:34 PM4/17/07

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    to spctools-discuss

    Hmm. I didn't notice the different errors. I tried running Protein
    Prophet and ASAPRatio again on the exact files that produced the
    database error and I haven't seen it again. I do see the
    protxml2html.plerrors. I've entered the log files below. When
    running setup.exe again I get a window that pops up and say Nothing
    needed to be installed.

    With running Protein Prophet only I get:


    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805; /usr/bin/xinteract -Ninteract.xml -p0.05 -x20 -Op /
    cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/
    Light/1118H8pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 SQUALL rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/Light/
    1118H8pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/adenokfive/
    H8PM_111805/Light/1118H8pm_01.xml
    processed altogether 4074 results


    results written to file c:\Inetpub\wwwroot\ISB\data\test_cn\adenokfive
    \H8PM_111805\interact.xml

    command completed in 14 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init error given 32512 SEQUEST trypsin
    MS Instrument info: Manufacturer: ThermoFinnigan, Model: LCQ Deca XP,
    Ionization: ESI, Analyzer: Ion Trap, Detector: Error given 32512 Mysql server error 1091 v3.0 April 1, 2004 (TPP v3.0 SQUALL rev.0, Build
    200703291728) [email protected]
    read in 29 1+, 2068 2+, 1977 3+, 0 4+, and 0 5+ spectra
    model complete after 25 iterations

    command completed in 12 sec

    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database
    \ipi.HUMAN.v3.23.fasta'"
    - Building Commentz-Walter keyword tree. - Searching the tree.
    - Linking duplicate entries. - Printing results.

    command completed in 19 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"

    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/test_cn/
    adenokfive/H8PM_111805/interact.xml. .
    . . read in 0 1+, 158 2+, and 237 3+ spectra with min prob 0.05

    sh: c:/Inetpub/wwwroot./tpp-bin/protxml2html.pl: No such file or
    directory
    c:/Inetpub/wwwroot./tpp-bin/protxml2html.pl -file "/cygdrive/c/


    Inetpub/wwwroot/ISB/data/test_cn/adenokfive/H8PM_111805/interact-
    prot.xml" 335 failed with code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Command FAILED

    This is what I see when running ProteinProphet with ASAPRatio.
    cd /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM; /usr/bin/xinteract -
    Ninteract.xml -p0.05 -x20 -Op -A-lKL-r0.5-S-mK128.1741L113.1594 /
    cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml /
    cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml
    --------------------------------------------------------------------------------


    /usr/bin/xinteract (TPP v3.0 Php $this view error rev.0, Build 200703291728)

    running: "/usr/bin/InteractParser 'interact.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/0524K5PM/Heavy/0524pm_01.xml' '/cygdrive/c/Inetpub/
    wwwroot/ISB/data/0524K5PM/Light/0524pm_01.xml'"
    file 1: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Heavy/
    0524pm_01.xml
    file 2: /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/Light/
    0524pm_01.xml
    processed altogether 1830 results


    results written to file c:\Inetpub\wwwroot\ISB\data\0524K5PM
    \interact.xml

    direct your browser to http://localhost:1441/ISB/data/0524K5PM/interact.shtml

    command completed in 8 sec

    running: "/usr/bin/PeptideProphetParser 'interact.xml' MINPROB=0.05
    EXTRAITRS=20"
    (SEQUEST)
    init with SEQUEST trypsin


    --------------------------------------------------------------------------------
    .skipping 317 lines of output.
    --------------------------------------------------------------------------------


    running: "/usr/bin/DatabaseParser 'interact.xml'"
    command completed in 0 sec

    running: "/usr/bin/RefreshParser 'interact.xml' 'C:\Xcalibur\database

    \66uniprot_sprot_human_eric.fasta'"


    - Building Commentz-Walter keyword tree. - Searching the tree.
    - Linking duplicate entries., error given 32512. - Printing results.

    command completed in 9 sec

    running: "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'
    XML"

    ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the

    original Perl by A. Keller (TPP v3.0 SQUALL rev.0, Build 200703131613)


    (xml input) (using degen pep info)

    . . reading in /cygdrive/c/Inetpub/wwwroot/ISB/data/0524K5PM/
    interact.xml. .
    .error given 32512. read in 15 1+, 195 2+, and 171 3+ spectra with min prob 0.05
    sh: c:/Inetpub/wwwroot./tpp-bin/protxml2html.pl: No such file or
    directory
    c:/Inetpub/wwwroot./tpp-bin/protxml2html.pl -file "/cygdrive/c/
    Inetpub/wwwroot/ISB/data/0524K5PM/interact-prot.xml" 263 failed with
    code 32512

    command "/usr/bin/ProteinProphet 'interact.xml' 'interact-prot.xml'


    XML" exited with non-zero exit code: 32512
    QUIT - the job is incomplete

    Command FAILED

    Thanks again for your help.

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    Joshua Tasman

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    Apr 17, 2007, 10:46:43 PM4/17/07

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    to [email protected]

    Thanks for explaining and posting the detailed logs. I still believe
    this is a corrupted installation. Rereun the cygwin setup program, and
    when you get to the "Select Packages" pane, expand "Base", find
    "ISB-MS-Tools" (should be the first entry), and click "Keep" until it
    cycles to "Reinstall", then proceed as usual.


    Josh

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    CH

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    Apr 17, 2007, 11:26:13 PM4/17/07

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    to spctools-discuss

    It looks like it worked (yay!). Thanks for the detailed directions
    you gave me and patience for someone who isn't stop 218 error computer-savvy.

    > > direct your browser tohttp://localhost:1441/ISB/data/test_cn/adenokfive/H8PM_111805/interac.

    > > direct your browser tohttp://localhost:1441/ISB/data/0524K5PM/interact.shtml

    How to fix the Runtime Code 32512 Microsoft Access Error 32512

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    Easily remove obtrusive and annoying ads by using an ad-blocking plugin. It can seamlessly integrate into your browser. Aside from speeding-up your browsing error given 32512, it can also save you from being forced to watch a video ad or listen to an auto-playing audio pitch.

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    Database:11g Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:10g Release 2
    Error code:ORA-32512
    Description: type "string" is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:11g Release 2
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type

    Database:12c Release 1
    Error code:ORA-32512
    Description: type 'string' is unknown
    Cause: trying to dump an invalid type name
    Action: specify a known type






    Oracle Database Error Codes Library


    Oracle Database Parameters


    Oracle Database Packages


    Packages list

    Oracle Database Data Dictionary

    Why Child Process Returns Exit Status 32512 In Unix


    takes a path to an executable, and arguments with which to launch that executable. It doesn't take bourne shell commands.


    is a bourne shell command (among others), and it can't be broken down into the path to an executable and some arguments due to the use of a pipe. This means it can't be executed using .


    To execute a bourne shell command usingone has to execute and pass and the command for arguments.


    So you want to execute using .



    You apparently tried



    That would be the same as bourne shell command .


    And both are very different than shell command. That would be



    You seem to think and are passed to thebut that's not the case at all. is a special character which results in a pipe, not an argument.




    As for the exit code,



    32512 = 0x7F00


    So it didn't die from a signal, a core dump wasn't produced, and it exited with code error given 32512 (0x7F).


    What 127 means is unclear, which is why it should accompanied by an error message. You tried to execute programbut there is no such program.