nathanhaigh / amos Goto Github PK

Hello,

'tigger' segfaults on the attached FASTA file (rename the file to .png). Here are the commands:

nucmer -maxmatch -c 40 sample.fa sample.fa -p sample
show-coords -H -c -l -o -r sample.delta | nucmerAnnotate -ignore 180 | egrep 'BEGIN|END|CONTAIN|IDENTITY' > sample.coords
nucmer2ovl -ignore 180 -tab sample.coords | sort2 > sample.ovl
ovl2OVL sample.ovl > sample.OVL
toAmos -o sample.afg -s sample.fa
bank-transact -c -z -b sample.bnk -m sample.afg
bank-transact    -z -b sample.bnk -m sample.OVL
tigger -v 3 -g -b sample.bnk
![sample](https://cloud.githubusercontent.com/assets/422028/7638044/763d9414-fa72-11e4-8fbe-813602f61eca.png)

The stack trace shows:
#0 Graph::new_edge (this=0x87e1048, p_n1=0x87e8260, p_n2=0x0, p_element=0x87e8bf0) at Graph.cc:217

217 p_n2->add_iedge(e);

minimus2 exited with status: 1

Since the last release of AMOS was in 2011 on sourceforge https://sourceforge.net/projects/amos/, I was wondering if this can be considered "official-enough" seeing as how it was updated much more recently.

Hi,
I am trying to install amos with jellyfish.

$./configure --with-jellyfish=/bin/jellyfish/
configure: error: Failed to compile program with libjellyfish!

I used LDFLAGS to pass the location of the libjellyfish.so library but it doesn't work.

Hi,
I am trying to install amos on debian but it seams impossible unless I install gcc4.3 which also needs old packages that I didn't manage to install. Is there a way to install amos with version 10 of gcc ?

Best regards,