[maker-devel] Updated Maker, having issues...

[Emily Whiston]

Hi,
I updated our version of Maker today and I'm running into issues... I'm
getting the following error message (it's LONG, so this is just the top
bit):

Process::MpiChunk::__ANON__() called at /usr/local/pkg/maker/lib/Error.pm
line 415
eval {...} called at /usr/local/pkg/maker/lib/Error.pm line 407
Error::subs::try(CODE(0x1f8c7430), HASH(0x1f955ed0)) called at
/usr/local/pkg/maker/lib/Process/MpiChunk.pm line 4165
Process::MpiChunk::_go(Process::MpiChunk=HASH(0x1f8b4b80), "load",
HASH(0x1f8b4960), 0, 0) called at
/usr/local/pkg/maker/lib/Process/MpiChunk.pm line 316
Process::MpiChunk::_loader(Process::MpiChunk=HASH(0x1f8b4b80),
HASH(0x1f8b4960), 0, 0, Process::MpiTiers=HASH(0x1f8b47c0)) called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 364
Process::MpiTiers::__ANON__() called at /usr/local/pkg/maker/lib/Error.pm
line 415
eval {...} called at /usr/local/pkg/maker/lib/Error.pm line 407
Error::subs::try(CODE(0x1f895dd0), HASH(0x1f8c7130)) called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 375
Process::MpiTiers::_load_chunks(Process::MpiTiers=HASH(0x1f8b47c0)) called
at /usr/local/pkg/maker/lib/Process/MpiTiers.pm line 185
Process::MpiTiers::next_chunk(Process::MpiTiers=HASH(0x1f8b47c0)) called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 816
Process::MpiTiers::_handler(Process::MpiTiers=HASH(0x1f8b47c0),
Error::Simple=HASH(0x1f895970), "Failed in tier preparation") called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 78
Process::MpiTiers::__ANON__(Error::Simple=HASH(0x1f895970),
SCALAR(0x1d6018c0)) called at /usr/local/pkg/maker/lib/Error.pm line 339
eval {...} called at /usr/local/pkg/maker/lib/Error.pm line 329
Error::subs::run_clauses(HASH(0x1f91cbd0), "Can't call method
\"get_Seq_by_id\" on an undefined value at /u"..., undef,
ARRAY(0x1d614c50)) called at /usr/local/pkg/maker/lib/Error.pm line 426
Error::subs::try(CODE(0x1f8c7480), HASH(0x1f91cbd0)) called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 79
Process::MpiTiers::_prepare(Process::MpiTiers=HASH(0x1f8b47c0)) called at
/usr/local/pkg/maker/lib/Process/MpiTiers.pm line 56
Process::MpiTiers::new("Process::MpiTiers", HASH(0x1cd3e520), 0,
"Process::MpiChunk") called at /usr/local/bin/maker line 259

FATAL ERROR
ERROR: Failed while examining contents of the fasta file and run log

FATAL ERROR

FATAL ERROR
ERROR: Can not load chunks
WARNING: You must always set a rank before running MpiTiers
FATAL: argument `out_dir` does not exist in MpiTier object


I found another thread in the mailing list with the same error message and
tried the advice there, but to no avail...
http://gmod.827538.n3.nabble.com/Can-map2assembly-be-run-outside-the-maker-pipeline-tt4032901.html#a4032997


I am running Maker with Snap and Augustus, using RNAseq-derived EST
evidence and gene models from a close relative. Any advice would be much
appreciated, as I'm rather desperate to get this up and running...


Best,

Emily
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