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Re: help needed for #733352

On 04/11/2014 12:29 AM, Diane Trout wrote:
On Thursday, April 10, 2014 15:30:21 Alex Mestiashvili wrote:
Dear mentors,

I would greatly appreciate if somebody would help with the #733352, I've
spent a couple of hours trying to resolve the issue but my cpp skills
are rather poor.

Thank you,
The patch below deals with one of the compile errors. I don't know if just
hiding the const modifier is better than pushing const-ness further into

Unfortunately the next const error I get is even worse. Const-ness seems to
get flipped between appendValue and trying to create a seqan::Gaps...


diff --git a/src/segment_juncs.cpp b/src/segment_juncs.cpp
index e3acc46..d73e0d6 100644
--- a/src/segment_juncs.cpp
+++ b/src/segment_juncs.cpp
@@ -2056,8 +2056,8 @@ void juncs_from_ref_segs(RefSequenceTable& rt,
MotifMap ims; - seqan::DnaStringReverseComplement rev_donor_dinuc(donor_dinuc);
-    seqan::DnaStringReverseComplement rev_acceptor_dinuc(acceptor_dinuc);
+    seqan::DnaStringReverseComplement
+    seqan::DnaStringReverseComplement
if (talkative)
          fprintf(stderr, "Collecting potential splice sites in islands\n");

Hi Diane,

Cool, thank you a lot, we are one step further!
Still I think that the upstream should try to fix it or we should reintroduce back SeqAn-1.3.

Best regards,

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