[
https://issues.apache.org/jira/browse/SPARK-12148?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15200940#comment-15200940
]
Sun Rui edited comment on SPARK-12148 at 3/18/16 3:33 AM:
----------------------------------------------------------
An issue reported in the Spark user list may be related to this naming conflict.
{code}
countData <- matrix(1:100,ncol=4)
condition <- factor(c("A","A","B","B"))
dds <- DESeqDataSetFromMatrix(countData, DataFrame(condition), ~ condition)
Works if i dont initialize the sparkR environment.
if I do library(SparkR) and sqlContext <- sparkRSQL.init(sc) it gives
following error
> dds <- DESeqDataSetFromMatrix(countData, as.data.frame(condition), ~
> condition)
Error in DataFrame(colData, row.names = rownames(colData)) :
cannot coerce class "data.frame" to a DataFrame
{code}
Note that package DESeq2 depends on S4vectos package
was (Author: sunrui):
An issue reported in the Spark user list may be related to this naming conflict.
{code}
countData <- matrix(1:100,ncol=4)
condition <- factor(c("A","A","B","B"))
dds <- DESeqDataSetFromMatrix(countData, DataFrame(condition), ~ condition)
Works if i dont initialize the sparkR environment.
if I do library(SparkR) and sqlContext <- sparkRSQL.init(sc) it gives
following error
> dds <- DESeqDataSetFromMatrix(countData, as.data.frame(condition), ~
> condition)
Error in DataFrame(colData, row.names = rownames(colData)) :
cannot coerce class "data.frame" to a DataFrame
{code}
> SparkR: rename DataFrame to SparkDataFrame
> ------------------------------------------
>
> Key: SPARK-12148
> URL: https://issues.apache.org/jira/browse/SPARK-12148
> Project: Spark
> Issue Type: Sub-task
> Components: SparkR
> Reporter: Michael Lawrence
>
> The SparkR package represents a Spark DataFrame with the class "DataFrame".
> That conflicts with the more general DataFrame class defined in the S4Vectors
> package. Would it not be more appropriate to use the name "SparkDataFrame"
> instead?
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
---------------------------------------------------------------------
To unsubscribe, e-mail: [email protected]
For additional commands, e-mail: [email protected]
