How to use MAQVIEW?

[cgjkjk]

Hi,
I use this MAQVIEW command "./maqview alo1564.map", to display the alignment. but system replies:

"freeglut (./maqview):unable to creat direct context rendering for window 'M.A.Q View'.
This may hurt performance.
Cannot open view on alo1564.map"


Is there anyone know what wrong is?

[ECO]

Did you index the map with maqindex -c XXXX.cns YYYY.map ?

[cgjkjk]

Yes, I did.
Also ran ./zrio make XXXXX.map

[ECO]

I've had this error when trying to use a newer version of maqview to view .map files from older versions of maq.

[xuer]

I got a "Segmentation fault" error when i tried
./maqindex -v input.map chrI:1-200

or ./maqindex -i input.map.


Is there anybody could help me?

[ester]

I tried running maqindex with maq output from versions 0.6.8 and 0.7.1, in either case there is a segmentation error

%maqindex -i -c consensus.cns all.map
-- Indexing the alignment file 'all.map' ... Segmentation fault

Can anybody help?

[lh3]

Jue has just uploaded a new maqview-0.2.5. This version works with 0.7.x. Sorry for the late update.

[baohua100]

You can use MapView to view any format alignment results.

http://evolution.sysu.edu.cn/english/software/mapview.htm

Now can be downloaded from our lab website.

View short reads alignment

input file:
1. Reference sequence file and
2. Eland , SOAP, MAQ, SeqMap ... any formated alignment results file

MapView converts the input files to MSF format file.

MapView loads the MSF file，then you can view the alignment and SNPs.

[xuer]

again maqview

I am sorry, is it because I made some mistake? with maqview -0.2.5, I got a blank window showing nothing sequence
after i close the window, I got a error:
freeglut_structure.c:439: fgEnumWindows: Assertion `fgState.Initialised' failed.

any one else have such problem ?

[sigusn]

Hi
I just downloaded the latest MAQ and MAQviewer, and when I try to view my alignments, MAQview shuts down after few mouse clicks and scrolling with the message: "Bus error". Is there a limitation for the number of alignments that MAQview can handle ?

[seqfast]

same for me, just downloaded and installed, and ran the maqdemo on phiX (~6kb)

new MAQ 7.1, new maqview 2.5

rhel5, 16Gb RAM

2.6.18-92.1.18.el5 #1 SMP Wed Nov 5 09:00:19 EST 2008 x86_64 x86_64 x86_64 GNU/Linux

/MAQ_BWA/maqview/maqindex -i -c consensus.cns all.map
-- Indexing the alignment file 'all.map' ... Segmentation fault


Incidentally I segfault while trying to build indexes with SOAPalign for anything larger than ~15Mbases.

[Torst]

I too am getting a segmentation fault. It happens with all combinations of maqview 0.23/0.25 with maq 0.6/0.7.1

maqindex -i neg.map
-- Indexing the alignment file 'neg.map' ... Segmentation fault

This is on Centos 5.x, Xeon SMP 64 bit CPU, 64 GB RAM.

[AnamikaDarwin]

maqview freeglut error

Did you index the map with maqindex -c XXXX.cns YYYY.map ?

Hello,

I am having similar issues like other users, i.e. get the following error message:

maqview s512.3diff.mapMerge
freeglut /maqview/bin/maqview: relocation error: /maqview/bin/maqview: symbol __fprintf_chk, version GLIBC_2.3.4 not defined in file libc.so.6 with link time reference

I have indexed my .map and .cns file as suggested by ECO.

The .map and .cns files are generated by the 0.7.1 version of maq and I am using the latest version of maqview, 0.2.5.

Thanks!
Anamika

[fadista]

Hi,

Did you get your problem solved? I am having the same problem...

[fadista]

I am having the same problem. Did you find a way to solve the problem?