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fread error with explicit 'select = NULL' #2007

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rcapell opened this issue Jan 30, 2017 · 9 comments
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fread error with explicit 'select = NULL' #2007

rcapell opened this issue Jan 30, 2017 · 9 comments
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bug fread
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v1.11.0

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@rcapell
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rcapell commented Jan 30, 2017

data.table version: 1.10.0
R version 3.3.2
(full session info at bottom of post)

Default value for fread argument select is NULL according to the function's help file.

I get an error when i explicitly pass select = NULL to fread (I use fread in a wrapper function and pass select to the wrapper).

Example, first two lines work as expected, third line yields an error:

# 1: read some data
fread("a,b\n1,2")
# 2: same but select just the second column
fread("a,b\n1,2", select = 2)
# 3: explicitly make no selection (should yield same result as 1)
fread("a,b\n1,2", select = NULL, verbose = T)

Input contains a \n (or is ""). Taking this to be text input (not a filename)
Detected eol as \n only (no \r afterwards), the UNIX and Mac standard.
Positioned on line 1 after skip or autostart
This line is the autostart and not blank so searching up for the last non-blank ... line 1
Detecting sep ... ','
Detected 2 columns. Longest stretch was from line 1 to line 2
Starting data input on line 1 (either column names or first row of data). First 10 characters: a,b
All the fields on line 1 are character fields. Treating as the column names.
Count of eol: 1 (including 0 at the end)
Count of sep: 1
nrow = MIN( nsep [1] / (ncol [2] -1), neol [1] - endblanks [0] ) = 1
Type codes (point 0): 11
Type codes: 11 (after applying colClasses and integer64)
Type codes: 11 (after applying drop or select (if supplied)
Allocating 2 column slots (2 - 0 dropped)
Read 1 rows. Exactly what was estimated and allocated up front
0.000s ( 0%) Memory map (rerun may be quicker)
0.000s ( 0%) sep and header detection
0.000s ( 0%) Count rows (wc -l)
0.000s ( 0%) Column type detection (100 rows at 10 points)
0.000s ( 0%) Allocation of 1x2 result (xMB) in RAM
0.000s ( 0%) Reading data
0.000s ( 0%) Allocation for type bumps (if any), including gc time if triggered
0.000s ( 0%) Coercing data already read in type bumps (if any)
0.000s ( 0%) Changing na.strings to NA
0.000s Total
Error in setcolorder(ans, reorder) :
neworder is length 0 but x has 2 columns.

Session info:

sessionInfo()

R version 3.3.2 (2016-10-31)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: Red Hat Enterprise Linux Client 7.3 (Maipo)

locale:
[1] LC_CTYPE=en_GB.UTF-8 LC_NUMERIC=C LC_TIME=en_GB.UTF-8 LC_COLLATE=en_GB.UTF-8 LC_MONETARY=en_GB.UTF-8
[6] LC_MESSAGES=en_GB.UTF-8 LC_PAPER=en_GB.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] data.table_1.10.0 HYPEtools_0.4-4 hydroGOF_0.3-8 zoo_1.7-14

loaded via a namespace (and not attached):
[1] Rcpp_0.12.9 lattice_0.20-34 intervals_0.15.1 FNN_1.1 reshape_0.8.6 spacetime_1.2-0 class_7.3-14 gstat_1.1-4
[9] grid_3.3.2 plyr_1.8.4 e1071_1.6-7 pbapply_1.3-1 sp_1.2-4 xts_0.9-7 tools_3.3.2 automap_1.0-14
[17] parallel_3.3.2 hydroTSM_0.4-2-1
@MichaelChirico
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MichaelChirico commented Jan 30, 2017 •
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I guess this line should be changed:

if (!missing(select)) {

To

if (!is.null(select)) {

Otherwise no default value for select should be given.

@jangorecki jangorecki mentioned this issue Mar 5, 2017
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@st-pasha st-pasha added the bug label Jul 6, 2017
@st-pasha st-pasha mentioned this issue Jul 6, 2017
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@rudazhang rudazhang mentioned this issue Sep 24, 2017
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@MichaelChirico
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@dselivanov i was just going to sit down and crank out this PR, unless you've already started?

@dselivanov
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dselivanov commented Sep 25, 2017 via email

@MichaelChirico
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MichaelChirico commented Sep 25, 2017 via email

@dselivanov
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dselivanov commented Sep 25, 2017 via email

@MichaelChirico
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MichaelChirico commented Sep 25, 2017 via email

@dselivanov
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dselivanov commented Sep 26, 2017 via email

@MichaelChirico
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MichaelChirico commented Sep 26, 2017 via email

@MichaelChirico
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MichaelChirico commented Oct 17, 2017 •
edited
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The fix appears to have come through setcolorder (I think #592, fixed in PR #1792), which no longer errors as before (even though that line is still hit).

The missing line should be replaced with is.null anyway.

I also find it odd that select is sent as a parameter to fread, since select is not touched on the R side before the C call -- perhaps @st-pasha knows better, but I think that means that either 1) select is not actually used within C or 2) all the type-checking, etc. that's done with select is done within C?

@mattdowle mattdowle added this to the v1.10.6 milestone Oct 19, 2017
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@mattdowle @jangorecki @st-pasha @dselivanov @rcapell @MichaelChirico