Enter the body of text here

Code should be placed in three backticks as shown below

library(TCGAbiolinks)

query <- GDCquery(
  project = "TCGA-LIHC",
  data.category = "Transcriptome Profiling",
  data.type = "Gene Expression Quantification", 
  workflow.type = "STAR - Counts",
  barcode = c("TCGA-DD-A1EG-11A-11R-A213-07", "TCGA-RC-A7SF-01A-11R-A352-07")
)

GDCdownload(query = query,method = "api")

data <- GDCprepare(query = query)

***after running the last codes, I got the following error.***


> library(TCGAbiolinks)
> query <- GDCquery(
+   project = "TCGA-LIHC",
+   data.category = "Transcriptome Profiling",
+   data.type = "Gene Expression Quantification", 
+   workflow.type = "STAR - Counts",
+   barcode = c("TCGA-DD-A1EG-11A-11R-A213-07", "TCGA-RC-A7SF-01A-11R-A352-07")
+ )
--------------------------------------
o GDCquery: Searching in GDC database
--------------------------------------
Genome of reference: hg38
--------------------------------------------
oo Accessing GDC. This might take a while...
--------------------------------------------
ooo Project: TCGA-LIHC
--------------------
oo Filtering results
--------------------
ooo By data.type
ooo By workflow.type
ooo By barcode
----------------
oo Checking data
----------------
ooo Checking if there are duplicated cases
ooo Checking if there are results for the query
-------------------
o Preparing output
-------------------
> GDCdownload(query = query,method = "api")
Downloading data for project TCGA-LIHC
GDCdownload will download 2 files. A total of 8.407686 MB
Downloading as: Tue_Oct_24_16_25_07_2023.tar.gz
Downloading: 1.9 MB     Download completed
**> data <- GDCprepare(query = query)
Error in GDCprepare(query = query) : 
  I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples.**

The version of package "TCGAbiolinks " I used is 2.28.4.