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</o:shapelayout></xml><![endif]--></head><body lang=EN-GB link=blue vlink=purple><div class=WordSection1><p class=MsoPlainText>Benjamin,<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>A lot better thanks, however one remaining issue is that the bottom of the image appears to have missing tiles at low zoom which are output as transparent (see below – I made transparent pixels red to check it wasn’t just outputting black).There is also a dark line at the border of these tiles it seems.<o:p></o:p></p><p class=MsoPlainText><span style='mso-fareast-language:EN-GB'><img width=914 height=662 id="Picture_x0020_1" src="cid:image001.png@01CF7E9F.0EE3E570"></span><o:p></o:p></p><p class=MsoPlainText><a name="_MailEndCompose"><o:p> </o:p></a></p><p class=MsoPlainText>Whereas in ImageScope you don’t get this and there appears to be data (or at least if it is filling missing data it is doing it in a very clever way as the background is far from 255,255,255):<o:p></o:p></p><p class=MsoPlainText><span style='mso-fareast-language:EN-GB'><img width=1920 height=1040 id="Picture_x0020_2" src="cid:image002.png@01CF7E9F.0EE3E570"></span><o:p></o:p></p><p class=MsoPlainText>Thanks<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>Derek<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText><span lang=EN-US style='mso-fareast-language:EN-GB'>-----Original Message-----<br>From: openslide-users-bounces+d.r.magee=leeds.ac.uk@lists.andrew.cmu.edu [mailto:openslide-users-bounces+d.r.magee=leeds.ac.uk@lists.andrew.cmu.edu] On Behalf Of Benjamin Gilbert<br>Sent: 02 June 2014 00:19<br>To: openslide-users@lists.andrew.cmu.edu<br>Subject: Re: Issue with some Aperio SVS files</span></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>On 06/01/2014 07:02 PM, Derek Magee wrote:<o:p></o:p></p><p class=MsoPlainText>> For some (say 1-2% of the ones I’ve tried) Aperio svs files, Openslide <o:p></o:p></p><p class=MsoPlainText>> throws and error on openslide_read_region(). Metadata can be read ok, <o:p></o:p></p><p class=MsoPlainText>> as can label images. Error printed out:<o:p></o:p></p><p class=MsoPlainText>><o:p> </o:p></p><p class=MsoPlainText>> TIFFFillTile: 0: Invalid tile byte count, tile 75<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>Some Aperio slides contain zero-length tiles; it seems to be a bug in some versions of the scanner software. Fixed in this commit:<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText><a href="https://github.com/openslide/openslide/commit/7e033bbb"><span style='color:windowtext;text-decoration:none'>https://github.com/openslide/openslide/commit/7e033bbb</span></a><o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>> I’m using openslide under windows (pre-built from a couple of months <o:p></o:p></p><p class=MsoPlainText>> back).<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>Try a nightly build:<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText><a href="http://openslide.cs.cmu.edu/download/snapshots/windows/"><span style='color:windowtext;text-decoration:none'>http://openslide.cs.cmu.edu/download/snapshots/windows/</span></a><o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>--Benjamin Gilbert<o:p></o:p></p><p class=MsoPlainText><o:p> </o:p></p><p class=MsoPlainText>_______________________________________________<o:p></o:p></p><p class=MsoPlainText>openslide-users mailing list<o:p></o:p></p><p class=MsoPlainText><a href="mailto:openslide-users@lists.andrew.cmu.edu"><span style='color:windowtext;text-decoration:none'>openslide-users@lists.andrew.cmu.edu</span></a><o:p></o:p></p><p class=MsoPlainText><a href="https://lists.andrew.cmu.edu/mailman/listinfo/openslide-users"><span style='color:windowtext;text-decoration:none'>https://lists.andrew.cmu.edu/mailman/listinfo/openslide-users</span></a><o:p></o:p></p></div></body></html>