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SProCop, what versions of car and qcc?

Adam Swank

2019-10-25 13:12

What versions of car and qcc are needed to run SProCop 1.3?

SProCoP Support - R already installed

Question about SProCop

(2 responses)

fazeliniah

2017-09-11 12:52

Hi Skyline team,
I have been trying to use SProCop for a PRM project. Unfortunately I get the following error. Any thoughts? I have attached the .sky file.
Thanks
Hossein

1>Error in dim(PA) = c(L, L2) :
1> dims [product 170] do not match the length of object [79]
1>Calls: tryCatch -> tryCatchList -> parse.cmdline
1>Execution halted
1>
1>Finished!

Carlo.Martins

2016-07-26 10:08

Hi all,
I am trying to install SProCoP in one of my company's computer.
As R is already installed, I wouldn't like to have to call IT support to install it again (they wouldn't understand a second installation requirement for the same software).
So, my question is: is it possible to override R installation and go ahead with SProCoP?

Thanks,
Carlo

SProCoP Error-Skyline V 3.5

(5 responses)

rick.king

2016-03-11 09:20

Hi,

I am getting the following error when trying to use SProCoP with Skyline V 3.5 (R 3.0.2):

Error in dim(PA) = c(L, L2) :
dims [product 72] do not match the length of object [144]
Calls: tryCatch -> tryCatchList -> parse.cmdline
Execution halted

Finished!

Operating System:
Windows 7 Professional (64-bit)

Attached is the skyline file that is causing the error.

Thanks for your help.
Sue and Rick

Human Apo_13C15N Master Mix 4 w TracerIons-SProCoP-Test-11Mar16.zip

Indicating the centroided mass in 'full scan' viewer

r bagshaw

2015-05-13 06:13

Hi,
For untargeted small molecule work, it would be handy when one clicks on the chromatogram trace to show the MS scan spectrum that the mass of the monoisotopic peak is displayed above the peak (kind of like what happens in xcalibur). Maybe there are options for number of decimal places, maybe even chemical composition? Right now to obtain the actual mass, I have to zoom in quite closely to get the x-axis to display the m/z to 4 or 5 decimal places and then read the mass from there.
Thanks!
--Rick

(1 response)

sstoychev

2015-04-03 04:59

Hi,

I get the following error message when running SProCoP via Skyline:

Error in dim(PA) = c(L, L2) :
dims [product 210] do not match the length of object [240]
Calls: tryCatch -> tryCatchList -> parse.cmdline
Execution halted

Finished!

Regards,

Stoyan

(1 response)

JeromeVia

2014-11-24 04:39

I try to use SProCoP1.0 on my QTOF PRM data with Skyline 2.6.0.6851
The external tool is easly install and I could generate SProCoP report but when I run SProCoP tool I have this error message:

Error in colMeans(PA[1:Q1, ]) :
'x' must be an array of at least two dimensions
Calls: tryCatch -> tryCatchList -> parse.cmdline -> colMeans
Execution halted
Finished!

Jerome

Error message when loading in new result file

(2 responses)

MWidya

2014-10-28 08:05

Hi,

I've just started exploring SProCop to analyse our QC samples and am having trouble getting it to work sometimes. I've successfully loaded and analysed a few test files, but as soon as I try using a different data set (using the same settings) or loading in a few new result files into a file that worked before I get an error message:

1>Error in dim(PA) = c(L, L2) :
1> dims [product 126] do not match the length of object [105]
1>Calls: tryCatch -> tryCatchList -> parse.cmdline
1>Execution halted
1>
1>Finished!
1>

Another error message I keep encountering is:

Error in plot.window(...) : need finite 'ylim' values
Calls: tryCatch ... parse.cmdline -> plot -> plot.default -> localWindow -> plot.window
Execution halted
Finished

It's probably something incredibly obvious that I'm missing, but could you point me in the right direction?

Thanks!
Kind regards,
Marcy

Using SProCoP with SRM data?

(7 responses)

andre

2014-08-17 01:09

Hi Michael,

I tried using SProCoP with an SRM data set (two traces for the analyte and one trace for the internal standard) acquired on an ABI Sciex 5500 QTRAP and couldn't make it work; when checking the SProCoP input file I noticed that the mass error column shows N/A entries. Is this a general issue with SRM data?

Best regards,
Andre

(1 response)

cmhende

2014-07-10 16:45

Hello,

I keep getting the same error message when I attempt to execute SProCoP from the Tools menu. I cannot seem to figure out what I am doing wrong. Could you possibly point me in the right direction? The error message is below.

Error in plot.new() : figure margins too large
1>Calls: tryCatch ... tryCatchList -> parse.cmdline -> plot -> plot.default -> plot.new
1>Execution halted
1>
1>Finished!

Thank you very much for your help!

Best,
Clark
Operating system: Windows 7 (32-bit)
Skyline version: Skyline-daily 2.5.16347
SProCop version: 1.0

(4 responses)

Wilf

2014-06-25 10:46

Hi,

I think I am doing something silly. I am wanting to use SProCoP and keep getting the following error message:
Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, :
line 285 did not have 8 elements
Calls: tryCatch ... tryCatchList -> parse.cmdline -> read.table -> scan
Execution halted
Finished!

Could you help please.

All the best

Andrew

discuss page - SProCoP Support

(1 response)

brian flatley

2014-03-04 04:44

Hi,

How does SProCoP decide which runs to use to calculate threshold values
e.g. If I select 3 (and I have load 20 files) how does it select which three to use as a calculator?

Thanks,

Brian

Operating System - Windows 8
Skyline Version - 2.5.0.5675
SProCoP Version - 1.0