Cloning development tree does not work

[samfux84]

Hi,

I am trying to install the development tree of masurca by following the developers instructions:

Only for developers: you can clone the development tree, but then there are dependencies such as swig and yaggo (http://www.swig.org/ and https://github.com/gmarcais/yaggo) that must be available on the PATH:

git clone https://github.com/alekseyzimin/masurca
git submodule init
git submodule update
make

Somehow this does not work:

[sfux@eu-c7-041-01 92970751.tmpdir]$ git clone https://github.com/alekseyzimin/masurca
Cloning into 'masurca'...
remote: Enumerating objects: 776, done.
remote: Total 776 (delta 0), reused 0 (delta 0), pack-reused 776
Receiving objects: 100% (776/776), 1.29 GiB | 5.34 MiB/s, done.
Resolving deltas: 100% (418/418), done.
[sfux@eu-c7-041-01 92970751.tmpdir]$ cd masurca
[sfux@eu-c7-041-01 masurca]$ git submodule init
Submodule 'wgs' (https://github.com/alekseyzimin/wgs.git) registered for path 'CA'
Submodule 'wgs-8' (https://github.com/alekseyzimin/wgs-8.git) registered for path 'CA8'
error: invalid key (newline): submodule.flye
Flye.url
error: invalid key (newline): submodule.flye
Flye.url
No url found for submodule path 'Flye' in .gitmodules
[sfux@eu-c7-041-01 masurca]$

Is this a known problem and if yes, is there any workaround to resolve this issue ?

[samfux84]

ftp://ftp.genome.umd.edu/pub/MaSuRCA/latest/ is also not reachable and the masurca releases on github do not contain the submodules.

Therefore at the moment it is impossible to install masurca 3.3.3

Please bring the ftp server back or fix the problem with checking out the submodules.