Installation of cyvcf

[sigven]

Hi,

I am installing cyvcf on my new Mac, but ran into trouble I have not experienced before. Cython v0.20.1 is used here. Do you have any idea why I get this error?

best,
Sigve

python setup.py build
running build
running build_py
creating build
creating build/lib.macosx-10.9-intel-2.7
creating build/lib.macosx-10.9-intel-2.7/cyvcf
copying cyvcf/init.py -> build/lib.macosx-10.9-intel-2.7/cyvcf
copying cyvcf/filters.py -> build/lib.macosx-10.9-intel-2.7/cyvcf
copying cyvcf/utils.py -> build/lib.macosx-10.9-intel-2.7/cyvcf
copying cyvcf/version.py -> build/lib.macosx-10.9-intel-2.7/cyvcf
running build_ext
cythoning cyvcf/parser.pyx to cyvcf/parser.c
warning: cyvcf/parser.pyx:352:37: cdef variable 'gt_bases' declared after it is used

Error compiling Cython file:

...
raise StopIteration

    #CHROM
    cdef bytes chrom = row[0]
    if self._prepend_chr:
        chrom = 'chr' + chrom
                     ^

---

cyvcf/parser.pyx:1172:26: Cannot convert 'str' to 'bytes' implicitly. This is not portable.

Error compiling Cython file:

...
cdef list row = line.split('\t')

    #CHROM
    cdef bytes chrom = row[0]
    if other._prepend_chr:
        chrom = 'chr' + chrom
                     ^

---

cyvcf/parser.pyx:1232:26: Cannot convert 'str' to 'bytes' implicitly. This is not portable.