Infinite loop in complex components expansion

[ghost]

While working on the large_corpus I found a strange situation and I was wondering if this corresponds to a correct encoding of a biological fact or if it is simply a typo.

In the large_corpus.bel file we have the following sentence:

p(HGNC:CD3D) hasComponent complex(SCOMP:"CD3 Complex”)

and in the named-complexes.bel file we have the sentence:

complex(SCOMP:"CD3 Complex") hasComponent p(HGNC:CD3D)

which produces an infinite loop when trying to recursively expand the components of any complex containing p(HGNC:CD3D) or complex(SCOMP:"CD3 Complex”).

Is it possible that the sentence in large_corpus.bel has the subject and object inverted?

[wshayes]

That is definitely a bug. complex(SCOMP:"CD3 Complex") hasComponent p(HGNC:CD3D) is correct. Feel free to correct it or I can do it later today.

Thanks!

On Jan 14, 2016, at 8:47 AM, Roberto Mosca [email protected] wrote:

While working on the large_corpus I found a strange situation and I was wondering if this corresponds to a correct encoding of a biological fact or if it is simply a typo

In the large_corpusbel file we have the following sentence:

p(HGNC:CD3D) hasComponent complex(SCOMP:"CD3 Complex”)

and in the named-complexesbel file we have the sentence:

complex(SCOMP:"CD3 Complex") hasComponent p(HGNC:CD3D)

Which produces an infinite loop when trying to recursively expand the components of any complex containing p(HGNC:CD3D) or complex(SCOMP:"CD3 Complex”)

Is it possible that the sentence in large_corpusbel is reversed?

—
Reply to this email directly or view it on GitHub #12.

[wshayes]

Need to update large_corpus.xbel as well. Tony - can you convert large_corpus.bel to *.xbel?

[wshayes]

Thanks Robert for the pull request to fix this and the other statements you found.

On Jan 14, 2016, at 8:47 AM, Roberto Mosca [email protected] wrote:

While working on the large_corpus I found a strange situation and I was wondering if this corresponds to a correct encoding of a biological fact or if it is simply a typo

In the large_corpusbel file we have the following sentence:

p(HGNC:CD3D) hasComponent complex(SCOMP:"CD3 Complex”)

and in the named-complexesbel file we have the sentence:

complex(SCOMP:"CD3 Complex") hasComponent p(HGNC:CD3D)

Which produces an infinite loop when trying to recursively expand the components of any complex containing p(HGNC:CD3D) or complex(SCOMP:"CD3 Complex”)

Is it possible that the sentence in large_corpusbel is reversed?

—
Reply to this email directly or view it on GitHub #12.

[ghost]

You're welcome! :)

[ghost]

I found another such situation...