<div dir="ltr">Hi all<br><div><br></div><div>I'm looking to move existing transcripts from one genome assembly to another, keeping the transcript names if possible. <div><br></div><div style>Running map2assembly seems to require MPI (stderr example below). Is is possible to run map2assembly outside of the Maker pipeline and without MPI?</div>
<div style><br></div><div style>Stderr head:</div><div style><br></div><div style><div><div><div><font face="courier new, monospace" size="1">INFO: All repeat masking options will be skipped.</font></div><div><font face="courier new, monospace" size="1"><br>
</font></div><div><font face="courier new, monospace" size="1">A data structure will be created for you at:</font></div><div><font face="courier new, monospace" size="1">/path/to/maker/bin/SN15v2_scaffolds.maker.output/SN15v2_scaffolds_datastore</font></div>
<div><font face="courier new, monospace" size="1"><br></font></div><div><font face="courier new, monospace" size="1">To access files for individual sequences use the datastore index:</font></div><div><font face="courier new, monospace" size="1">/path/to/maker/bin/SN15v2_scaffolds.maker.output/SN15v2_scaffolds_master_datastore_index.log</font></div>
<div><font face="courier new, monospace" size="1"><br></font></div><div><font face="courier new, monospace" size="1">Can't call method "get_Seq_by_id" on an undefined value at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 226, <GEN10> line 1.</font></div>
<div><font face="courier new, monospace" size="1"><br></font></div><div><font face="courier new, monospace" size="1">FATAL ERROR</font></div><div><font face="courier new, monospace" size="1">ERROR: Failed in tier preparation</font></div>
<div><font face="courier new, monospace" size="1">WARNING: You must always set a rank before running MpiTiers</font></div><div><font face="courier new, monospace" size="1">FATAL: argument `q_def` does not exist in MpiTier object</font></div>
<div><font face="courier new, monospace" size="1"> at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 86, <GEN10> line 1.</font></div><div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiChunk::_initialize_vars('Process::MpiChunk=HASH(0x332dac8)', 'HASH(0x332db88)') called at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 47</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiChunk::new('Process::MpiChunk', 'HASH(0x2ef85a8)', 0, 0) called at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 413</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiChunk::__ANON__() called at /path/to/maker/bin/../lib/Error.pm line 415</font></div><div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>eval {...} called at /path/to/maker/bin/../lib/Error.pm line 407</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Error::subs::try('CODE(0x2f49498)', 'HASH(0x332d728)') called at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 4165</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiChunk::_go('Process::MpiChunk=HASH(0x2f35e88)', 'load', 'HASH(0x2ef85a8)', 0, 0) called at /path/to/maker/bin/../lib/Process/MpiChunk.pm line 316</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiChunk::_loader('Process::MpiChunk=HASH(0x2f35e88)', 'HASH(0x2ef85a8)', 0, 0, 'Process::MpiTiers=HASH(0x79f3d0)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 364</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::__ANON__() called at /path/to/maker/bin/../lib/Error.pm line 415</font></div><div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>eval {...} called at /path/to/maker/bin/../lib/Error.pm line 407</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Error::subs::try('CODE(0x2f411a0)', 'HASH(0x2f491c8)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 375</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::_load_chunks('Process::MpiTiers=HASH(0x79f3d0)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 185</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::next_chunk('Process::MpiTiers=HASH(0x79f3d0)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 816</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::_handler('Process::MpiTiers=HASH(0x79f3d0)', 'Error::Simple=HASH(0x2f35c18)', 'Failed in tier preparation') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 78</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::__ANON__('Error::Simple=HASH(0x2f35c18)', 'SCALAR(0x1179c30)') called at /path/to/maker/bin/../lib/Error.pm line 339</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>eval {...} called at /path/to/maker/bin/../lib/Error.pm line 329</font></div><div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Error::subs::run_clauses('HASH(0x2f36230)', 'Can\'t call method "get_Seq_by_id" on an undefined value at /...', undef, 'ARRAY(0x117a1e8)') called at /path/to/maker/bin/../lib/Error.pm line 426</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Error::subs::try('CODE(0x2f28898)', 'HASH(0x2f36230)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 79</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::_prepare('Process::MpiTiers=HASH(0x79f3d0)') called at /path/to/maker/bin/../lib/Process/MpiTiers.pm line 56</font></div>
<div><font face="courier new, monospace" size="1"><span class="" style="white-space:pre"> </span>Process::MpiTiers::new('Process::MpiTiers', 'HASH(0x79f508)', 0, 'Process::MpiChunk') called at ./map2assembly line 205</font></div>
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