[R-SIG-Mac] Difference between Terminal output and GUI output.

[Joseph Kunkel]

Dear R-sig-Mac,

Sorry, this was sent via another email(non-SIG-member instance) and I am resending this in order to get consideration perhaps more quickly.

I have a problem with output from the R.app GUI which is at odds in part with the Terminal console output which I prefer. The GUI does debug requests interspersed with the desired output.

My system is:

Model Name: MacBook Pro
Model Identifier: MacBookPro10,1
Processor Name: Intel Core i7
Processor Speed: 2.7 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Memory: 16 GB
System Software Overview:
System Version: OS X 10.9.4 (13E28)
Kernel Version: Darwin 13.3.0

R version 3.1.1 (2014-07-10) -- "Sock it to Me"
Copyright (C) 2014 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin10.8.0 (64-bit)

R.app GUI 1.65 (6784 Snow Leopard build), S.

An R-script accesses an array XX which has ...

attributes(XX)

$dim
[1] 12 3 8

The R-script that gives me the problem:
# GetCL.R
for (i in 1:4) { out<- round(((sum((XX[3,,i]-XX[10,,i])^2))^0.5 + (sum((XX[2,,i]-XX[10,,i])^2))^0.5)/2,3)
cat(out,'\n')
}

source("GetCL.R")

35.791
35.811
44.625
43.316

source("GetCL.R")

debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.791
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.811
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
44.625
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
43.316

Of course this output gets more tedious if I try to process the entire array by running for i in 1:larger-n.
Is there any way to get rid of these debug and browse messages messages in GUI mode?
I have never experienced this debug output in my ca. 12+ years of using R intensely.

I just recently upgraded to R version 3.1.1 (2014-07-10) and renewed all my libraries.

-?. .? ?. .><((((?>?. .? ?. .><((((?>?. .? ?. .><((((?> .??.? >=- =?}}}}}><
Joseph G. Kunkel, Emeritus Professor
Biology Department
UMass Amherst
Amherst MA 01003
joe at bio.umass.edu

[Duncan Murdoch]

Post by Joseph Kunkel
Dear R-sig-Mac,
Sorry, this was sent via another email(non-SIG-member instance) and I am resending this in order to get consideration perhaps more quickly.
I have a problem with output from the R.app GUI which is at odds in part with the Terminal console output which I prefer. The GUI does debug requests interspersed with the desired output.
Model Name: MacBook Pro
Model Identifier: MacBookPro10,1
Processor Name: Intel Core i7
Processor Speed: 2.7 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Memory: 16 GB
System Version: OS X 10.9.4 (13E28)
Kernel Version: Darwin 13.3.0
R version 3.1.1 (2014-07-10) -- "Sock it to Me"
Copyright (C) 2014 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin10.8.0 (64-bit)
R.app GUI 1.65 (6784 Snow Leopard build), S.
An R-script accesses an array XX which has ...

attributes(XX)

$dim
[1] 12 3 8
# GetCL.R
for (i in 1:4) { out<- round(((sum((XX[3,,i]-XX[10,,i])^2))^0.5 + (sum((XX[2,,i]-XX[10,,i])^2))^0.5)/2,3)
cat(out,'\n')
}

source("GetCL.R")

35.791
35.811
44.625
43.316

source("GetCL.R")

debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>

etc.

That's not normal output. It's hard to guess exactly what's going
wrong, but perhaps you have set a hook somewhere (see ?getHook), or have
an option set that is not obvious, or have some code in your workspace
that is interfering with normal evaluation.

Duncan Murdoch

Post by Joseph Kunkel
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.791
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.811
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
44.625
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
43.316
Of course this output gets more tedious if I try to process the entire array by running for i in 1:larger-n.
Is there any way to get rid of these debug and browse messages messages in GUI mode?
I have never experienced this debug output in my ca. 12+ years of using R intensely.
I just recently upgraded to R version 3.1.1 (2014-07-10) and renewed all my libraries.
-?. .? ?. .><((((?>?. .? ?. .><((((?>?. .? ?. .><((((?> .??.? >=- =?}}}}}><
Joseph G. Kunkel, Emeritus Professor
Biology Department
UMass Amherst
Amherst MA 01003
joe at bio.umass.edu
_______________________________________________
R-SIG-Mac mailing list
R-SIG-Mac at r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-mac

[Joseph Kunkel]

Dear R-sig-Mac,

I have a problem with output from the R.app GUI which is at odds in part with the Terminal console output which I prefer. The GUI does debug requests interspersed with the desired output.

My system is:

Model Name: MacBook Pro
Model Identifier: MacBookPro10,1
Processor Name: Intel Core i7
Processor Speed: 2.7 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Memory: 16 GB
System Software Overview:
System Version: OS X 10.9.4 (13E28)
Kernel Version: Darwin 13.3.0

R version 3.1.1 (2014-07-10) -- "Sock it to Me"
Copyright (C) 2014 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin10.8.0 (64-bit)

R.app GUI 1.65 (6784 Snow Leopard build), S.

An R-script accesses an array XX which has ...

attributes(XX)

$dim
[1] 12 3 8

The R-script that gives me the problem:
# GetCL.R
for (i in 1:4) { out<- round(((sum((XX[3,,i]-XX[10,,i])^2))^0.5 + (sum((XX[2,,i]-XX[10,,i])^2))^0.5)/2,3)
cat(out,'\n')
}

source("GetCL.R")

35.791
35.811
44.625
43.316

source("GetCL.R")

debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.791
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
35.811
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
44.625
debug at GetCL.R#3: out <- round(((sum((XX[3, , i] - XX[10, , i])^2))^0.5 + (sum((XX[2,
, i] - XX[10, , i])^2))^0.5)/2, 3)
Browse[2]>
debug at GetCL.R#4: cat(out, "\n")
Browse[2]>
43.316

Of course this output gets more tedious if I try to process the entire array by running for i in 1:larger-n.
Is there any way to get rid of these debug and browse messages messages in GUI mode?
I have never experienced this debug output in my ca. 12+ years of using R intensely.

I just recently upgraded to R version 3.1.1 (2014-07-10) and renewed all my libraries.


-?. .? ?. .><((((?>?. .? ?. .><((((?>?. .? ?. .><((((?> .??.? >=- =?}}}}}><
Joseph G. Kunkel, Research Professor
112A Marine Science Center
University of New England
Biddeford ME 04005
http://www.bio.umass.edu/biology/kunkel/