#23 Sigmoid Schema & CreateSQL Bug?
I was testing out the latest Sigmoid schema v41 when I
got the following messages from Pymerase. At the
bottomw of these messages it says 'Skiping * becasuse
type * doesn't exist. I checked the schema and some of
these 'Types' do seem to exist. I am not sure what's
going wrong.
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table reaction_info has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table conversion has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table diffusion has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table elementary_bimolecular has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table unidirectional has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table pairwise_protein_association has
no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table annihilation has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table elementary_dissociation has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table creation has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table phenomenological_regtranscription
has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table decomposed_transcription has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table simplifiedns_catalytic has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping reaction_rate because of Type
Number unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table protocols has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table yeast_two_hybrid_system has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table affinity_column_mass_spect has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping yeast_proteome_database
because of Type PubMethod unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping dataset because of Type
Database unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table reactant_info has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table documented_protein has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table dna has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table gene has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table orf has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table small_molecule has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table lipid has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table rna has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping y2_h_dimer because of Type
Protocols unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table affinity_derived_complex has no
attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping taxon because of Type Taxon
unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table organism has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table phylum has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping function because of Type
Function unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping reactant_name because of Type
KnowledgeSource unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:113:
RuntimeWarning: Table model_info has no attributes
warn("Table %s has no attributes" % className,
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping parameter because of Type
Value unknown
RuntimeWarning)
/usr/lib/python2.2/site-packages/pymerase/output/CreateSQL.py:258:
RuntimeWarning: Skipping model because of Type
KnowledgeSource unknown
RuntimeWarning)
