found a solution for my problem.
bfast gives error when align reads contains non a t c g n base.
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
had similar error too, like the following:
In function "AlignedEndRead": Fatal Error[ReadFileError]. Variable/Value: a->reads, a->qual, and a->numEntries.
Message: Could not read from file.
The file stream error was:: Success
***** Exiting due to errors *****
Leave a comment:
-
Originally posted by fenciso View PostHi,
II am new using bfast, I have a question: How can I define the mask values??, in index option.
Thanks
Leave a comment:
-
Hi,
II am new using bfast, I have a question: How can I define the mask values??, in index option.
Thanks
Leave a comment:
-
some error message from BFAST match
hi,
I got some error message when I use BFAST for solid data mapping:
error 1:
In function "RGMatchPrint": Fatal Error[WriteFileError]. Message: Could not write m->readLength, m->qualLength, m->read, m->qual, m->maxReached, and m->numEntries.
The file stream error was:: No space left on device
***** Exiting due to errors *****
Does it mean I don't have enough memory or space to run it? But I run it on a cluster, it should have enough memory or space.
error 2:
In function "RGMatchPrint": Fatal Error[WriteFileError]. Message: Could not write masks[i].
The file stream error was:: No space left on device
***** Exiting due to errors *****
error 3:
************************************************************
Searching for main indexes...
************************************************************
In function "GetIndexFileNames": Fatal Error[OutOfRange]. Variable/Value: /icgc/lsdf/mb/analysis_final/reference/bfastCS/hg19.fa.cs.
Message: Could not find any indexes with the given prefix.
***** Exiting due to errors *****
For this error, I do have indexes there. Sometimes it can find them, sometimes it reports this error. So I don't understand why.Tags: None
Latest Articles
Collapse
-
by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
Channel: Articles
04-22-2024, 07:01 AM -
-
by seqadmin
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
Channel: Articles
04-04-2024, 04:25 PM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, Yesterday, 11:49 AM
|
0 responses
13 views
0 likes
|
Last Post
by seqadmin
Yesterday, 11:49 AM
|
||
Started by seqadmin, 04-24-2024, 08:47 AM
|
0 responses
16 views
0 likes
|
Last Post
by seqadmin
04-24-2024, 08:47 AM
|
||
Started by seqadmin, 04-11-2024, 12:08 PM
|
0 responses
61 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
60 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
Leave a comment: