R/checkUserInput.R

In methimpute: Imputation-guided re-construction of complete methylomes from WGBS data

check.positive.integer = function(testvar) {
    if (!is(testvar,"numeric") & !is(testvar,"integer")) return(1)
    if (length(testvar)>1) return(2)
    if (testvar <= 0) return(3)
    if (testvar != as.integer(testvar)) return(4)
    return(0)
}
check.positive.integer.vector = function(testvec) {
    if (!is(testvec,"numeric") & !is(testvec,"integer")) return(1)
    for (elem in testvec) {
        if (elem <= 0) return(2)
        if (elem != as.integer(elem)) return(3)
    }
    return(0)
}
check.nonnegative.integer.vector = function(testvec) {
    if (!is(testvec,"numeric") & !is(testvec,"integer")) return(1)
    for (elem in testvec) {
        if (elem < 0) return(2)
        if (elem != as.integer(elem)) return(3)
    }
    return(0)
}
check.positive = function(testvar) {
    if (!is(testvar,"numeric") & !is(testvar,"integer")) return(1)
    if (length(testvar)>1) return(2)
    if (testvar <= 0) return(3)
    return(0)
}
check.positive.vector = function(testvec) {
    if (!is(testvec,"numeric") & !is(testvec,"integer")) return(1)
    for (elem in testvec) {
        if (elem <= 0) return(2)
    }
    return(0)
}
check.nonnegative.vector = function(testvec) {
    if (!is(testvec,"numeric") & !is(testvec,"integer")) return(1)
    for (elem in testvec) {
        if (elem < 0) return(2)
    }
    return(0)
}
check.integer = function(testvar) {
    if (!is(testvar,"numeric") & !is(testvar,"integer")) return(1)
    if (length(testvar)>1) return(2)
    if (testvar != as.integer(testvar)) return(3)
    return(0)
}
check.logical = function(testbool) {
    if (!is(testbool,"logical")) return(1)
    if (length(testbool)>1) return(2)
    return(0)
}
check.strand = function(teststrand) {
    if (teststrand!='+' & teststrand!='-' & teststrand!='*') return(1)
    return(0)
}