Upgrade to _XOPEN_SOURCE=700, to match HTSlib#2221
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HTSlib now needs _XOPEN_SOURCE=700, mainly for ref-cache. Upgrade SAMtools to match. This mainly affects the CI builds, and Windows with an embedded HTSlib, where SAMtools' setting could override the one expected by HTSlib. Replace a few instances of usleep() with nanosleep() as the former was deprecated and removed from _XOPEN_SOURCE=700 onwards.
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HTSlib now needs
_XOPEN_SOURCE=700, mainly forref-cache. Upgrade SAMtools to match. This mainly affects the CI builds, and Windows with an embedded HTSlib, where SAMtools' setting could override the one expected by HTSlib.Replace a few instances of
usleep()withnanosleep()as the former was deprecated and removed from_XOPEN_SOURCE=700onwards.