[datatable-help] fread crash

[statquant3]

R) sessionInfo()
R version 3.0.1 (2013-05-16)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] C
attached base packages:
[1] stats     graphics  grDevices datasets  utils     methods   base
other attached packages:
[1] data.table_1.8.11 [**something I cannot disclose (...I know...)**]
loaded via a namespace (and not attached):
[1] plyr_1.8       reshape2_1.2.2 stringr_0.6.2

======================================================
R) data <- fread(FILE, verbose=T)
Input contains no \n. Taking this to be a filename to open
Detected eol as \n only (no \r afterwards), the UNIX and Mac standard.
Using line 30 to detect sep (the last non blank line in the first
'autostart') ... sep=','
Found 22 columns
First row with 22 fields occurs on line 1 (either column names or first row
of data)
All the fields on line 1 are character fields. Treating as the column names.
Count of eol after first data row: 5094763
Subtracted 0 for last eol and any trailing empty lines, leaving 5094763 data
rows
Type codes: 4444444433333331411433 (first 5 rows)
Type codes: 4444444433333333431433 (+middle 5 rows)

 *** caught segfault *** address 0x2ae7f1a000, cause 'memory not mapped'

Traceback:
 1: fread(FILE, verbose = T)

Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace

====================
Here is the output for 5 lines, it worked this time

R) dataT <- fread(FILE, nrow=5, verbose=T)
Input contains no \n. Taking this to be a filename to open
Detected eol as \n only (no \r afterwards), the UNIX and Mac standard.
Using line 30 to detect sep (the last non blank line in the first
'autostart') ... sep=','
Found 22 columns
First row with 22 fields occurs on line 1 (either column names or first row
of data)
All the fields on line 1 are character fields. Treating as the column names.
Count of eol after first data row: 5094763
Subtracted 0 for last eol and any trailing empty lines, leaving 5094763 data
rows
nrow limited to nrows passed in (5)
Type codes: 4444444433333331411433 (first 5 rows)
Type codes: 4444444433333331411433 (after applying colClasses and integer64)
Type codes: 4444444433333331411433 (after applying drop or select (if
supplied)
Allocating 22 column slots (22 - 0 NULL)
   0.000s (  0%) Memory map (rerun may be quicker)
   0.000s (  0%) sep and header detection
   2.760s (100%) Count rows (wc -l)
   0.000s (  0%) Column type detection (first, middle and last 5 rows)
   0.000s (  0%) Allocation of 5x22 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
   2.760s        Total
Warning message:
In fread(FILE, nrow = 5, verbose = T) : Mapped file ok but madvise failed





--
View this message in context: http://r.789695.n4.nabble.com/fread-crash-tp4683394p4683397.html
Sent from the datatable-help mailing list archive at Nabble.com.