@@ -256,7 +256,9 @@ gmql_take <- function(input_data, rows)

     sampleList <- lapply(list, function(x){

         x <- x[-1]

         names(x) <- seq_name

-        x$start = x$start +1

+        start_numeric = as.numeric(levels(x$start))[x$start]

+        start_numeric = start_numeric + 1

+        levels(x$start)[x$start] = start_numeric

         g <- GenomicRanges::makeGRangesFromDataFrame(x,

                                     keep.extra.columns = TRUE,

                                     start.field = "start",

@@ -14,7 +14,8 @@ files. It can be TAB, GTF or COLLECT:

 \item{TAB: tab-delimited file format}

 \item{GTF: tab-delimited text standard format based on the General 

 Feature Format}

-\item{COLLECT: used for storing output in memory}

+\item{COLLECT: used for storing output in memory (only in the case of local 

+processing, i.e., remote_processing = FALSE,)}

 }}

 \item{remote_processing}{logical value specifying the processing mode.

@@ -26,9 +27,9 @@ If NULL, no login is performed.

 You can always perform it by calling the function \code{\link{login_gmql}} 

 explicitly}

-\item{username}{string name used during signup}

+\item{username}{string name used during remote server signup}

-\item{password}{string password used during signup}

+\item{password}{string password used during remote server signup}

 }

 \value{

 None