Description Usage Arguments Value Author(s) Examples
Iteratively calls the function FullJoinPairs() to join lines of two files on a common field
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files |
which files to join |
prefix |
any convenience prefix command to be passed to the beginning of the Unix command to be executed |
suffix |
any convenience suffix command to be passed to the end of the Unix command to be executed |
myjoin |
the particular Join function from the package to use |
NumFields |
this includes the userid column |
sep |
column delimiter; default white space |
mycat |
effective cat command, if empty do NOT use FIFos |
filterStr |
various inline filters that act locally and do not need an input file, |
ReturnData |
should the result of the join command be read into R and returned as a dataframe? |
verbose |
level of verbosity |
... |
further arguments to myjoin such as missingValue or extraARGS |
returns command only
"Markus Loecher, Berlin School of Economics and Law (BSEL)" <markus.loecher@gmail.com>
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#no FIFOs:
FullJoin(NumFields = rep(4,2))
FullJoin(paste0("ftr",1:4,".txt"), NumFields = rep(4, 4), suffix = " | gzip > joined.txt.gz")
FullJoin(paste0("ftr",1:4,".txt"), NumFields = rep(3, 4),missingValue="0", suffix = "")
#with FIFOs:
FullJoin(paste0("ftr",1:4,".txt"), mycat = "cat ", NumFields = rep(3, 4),missingValue="0",
suffix = "", verbose=2)
FullJoin(paste0("ftr",1:3,".txt.gz"), mycat = "gunzip -cf ", filterStr = " | cut -f1,3",
NumFields = rep(2, 3), verbose=2)
#selected columns only:
FullJoin(paste0("ftr",1:3,".txt"), mycat = "cat ", filterStr = "cut -f1,3",
NumFields = rep(2, 3),missingValue="0", suffix = "", verbose=2)
ret = ArtificialData(fakeDataDir="./fakeData2", joinKey=letters, numFiles = 10,
N = rep(18,10), NCOL=rep(5,10))
FullJoin(paste0("./fakeData2/file",1:10,".txt"),missingValue="0", suffix = "", verbose=2)
# let's try FIFOs:
#small:
cmd = FullJoin(paste0("file",1:2,".txt"), mycat = "cat ", NumFields = rep(5, 2),
missingValue="0", suffix = " > joined.txt", verbose=2)
cmd = FullJoin(paste0("file",1:3,".txt"), mycat = "cat ", NumFields = rep(5, 3),
missingValue="0", suffix = " > joined.txt", verbose=2)
# and now gzipped files:
ret = ArtificialData(fakeDataDir="./fakeData", joinKey=letters, numFiles = 10,GZIP =1,
N = rep(18,10), NCOL=rep(5,10))
cmd = FullJoin(paste0("./fakeData/file",1:10,".txt.gz"), mycat = "gunzip -c ",
NumFields = rep(3, 10),missingValue="NA",
filterStr = " | cut -f1,2,3",
suffix = " > joined.txt", verbose=2)
x = FullJoin(paste0("./fakeData/file",1:10,".txt.gz"), mycat = "gunzip -c ",
NumFields = rep(3, 10),missingValue="NA",
filterStr = " | cut -f1,2,3",ReturnData=TRUE,
suffix = "", verbose=0)
}
#let us try a laarge example
#uids = sort(paste0(sample(LETTERS,10^7,replace=TRUE), sample(10^8,10^7)))
#uids = paste0(LETTERS, (10^7):(10^8))
#tmp=expand.grid(LETTERS,LETTERS,LETTERS,0:9,0:9);str(tmp)
#uids=apply(expand.grid(LETTERS[1:3],LETTERS[1:3],0:2,0:3),1,paste0,collapse="")
#uids=apply(expand.grid(LETTERS,LETTERS,LETTERS,0:9,0:9),1,paste0,collapse="")
if (0) {
uids = scan("uids.txt",what="")
Nfiles=100
ret = ArtificialData(fakeDataDir="./fakeData", joinKey=uids,
numFiles = Nfiles, GZIP =1, N = rep(10^5,Nfiles), NCOL=rep(10,Nfiles))
cmd = FullJoin(paste0("fakeData/file",1:10,".txt.gz"), mycat = "gunzip -c ",
NumFields = rep(3, 10),missingValue="NA",
filterStr = " | cut -f1,2,3",
suffix = " | gzip > ./fakeData/joined.txt.gz", verbose=2)
system("rm /tmp/fifo*")
for (go in cmd) system(go)
x = FullJoin(paste0("./fakeData/file",1:10,".txt.gz"), mycat = "gunzip -c ",
NumFields = rep(3, 10),missingValue="NA",
filterStr = " | cut -f1,2,3",ReturnData=TRUE,
suffix = "", prefix="", verbose=0)
}
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