20100908T071546: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :oosp: hi 20100908T071546: leafw_!~cardona@pacific.mpi-cbg.de: oosp: hi 20100908T071643: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :oosp: if Display.getFront() returns None, then try double-click on a layer node in the "Layer Tree" (in the TrakEM2 window) to open a new display 20100908T071643: leafw_!~cardona@pacific.mpi-cbg.de: oosp: if Display.getFront() returns None, then try double-click on a layer node in the "Layer Tree" (in the TrakEM2 window) to open a new display 20100908T071701: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :alternatively, try this: 20100908T071701: leafw_!~cardona@pacific.mpi-cbg.de: alternatively, try this: 20100908T071706: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :from ini.trakem2 import ControlWindow 20100908T071706: leafw_!~cardona@pacific.mpi-cbg.de: from ini.trakem2 import ControlWindow 20100908T071726: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :layerset = ControlWindow.getActive().getRootLayerSet() 20100908T071726: leafw_!~cardona@pacific.mpi-cbg.de: layerset = ControlWindow.getActive().getRootLayerSet() 20100908T071747: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :d = layerset.findById(12345) <--- put the right ID 20100908T071747: leafw_!~cardona@pacific.mpi-cbg.de: d = layerset.findById(12345) <--- put the right ID 20100908T072412: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :hi leafw_ 20100908T072412: oosp!~mark@ini-firewall.uzh.ch: hi leafw_ 20100908T072415: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i'll try that now 20100908T072415: oosp!~mark@ini-firewall.uzh.ch: i'll try that now 20100908T072449: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ok 20100908T072449: leafw_!~cardona@pacific.mpi-cbg.de: ok 20100908T072655: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :try then "print d" to see if it was found 20100908T072655: leafw_!~cardona@pacific.mpi-cbg.de: try then "print d" to see if it was found 20100908T072709: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :strange, i tried double-clicking on a layer node (i assume you mean a member of the list in the right-hand pane of the project window?) and still get: 20100908T072709: oosp!~mark@ini-firewall.uzh.ch: strange, i tried double-clicking on a layer node (i assume you mean a member of the list in the right-hand pane of the project window?) and still get: 20100908T072711: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> print(Display.getFront()) 20100908T072711: oosp!~mark@ini-firewall.uzh.ch: >>> print(Display.getFront()) 20100908T072711: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :None 20100908T072711: oosp!~mark@ini-firewall.uzh.ch: None 20100908T072719: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :xD 20100908T072719: leafw_!~cardona@pacific.mpi-cbg.de: xD 20100908T072721: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :wait 20100908T072721: leafw_!~cardona@pacific.mpi-cbg.de: wait 20100908T072728: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :that None is the return value of print 20100908T072728: leafw_!~cardona@pacific.mpi-cbg.de: that None is the return value of print 20100908T072742: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :is the log window printing? 20100908T072742: leafw_!~cardona@pacific.mpi-cbg.de: is the log window printing? 20100908T072745: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :or stdout? 20100908T072745: leafw_!~cardona@pacific.mpi-cbg.de: or stdout? 20100908T072754: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :still: 20100908T072754: oosp!~mark@ini-firewall.uzh.ch: still: 20100908T072803: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :I'd do: front = Display.getFront(); then print front 20100908T072803: leafw_!~cardona@pacific.mpi-cbg.de: I'd do: front = Display.getFront(); then print front 20100908T072804: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> f = Display.getFront() 20100908T072804: oosp!~mark@ini-firewall.uzh.ch: >>> f = Display.getFront() 20100908T072804: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> print(f) 20100908T072804: oosp!~mark@ini-firewall.uzh.ch: >>> print(f) 20100908T072804: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :None 20100908T072804: oosp!~mark@ini-firewall.uzh.ch: None 20100908T072814: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :and print f ? 20100908T072814: leafw_!~cardona@pacific.mpi-cbg.de: and print f ? 20100908T072831: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> print f 20100908T072831: oosp!~mark@ini-firewall.uzh.ch: >>> print f 20100908T072831: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :None 20100908T072831: oosp!~mark@ini-firewall.uzh.ch: None 20100908T072836: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :hum 20100908T072836: leafw_!~cardona@pacific.mpi-cbg.de: hum 20100908T072837: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :(sorry, have been doing too much Python 3 :)) 20100908T072837: oosp!~mark@ini-firewall.uzh.ch: (sorry, have been doing too much Python 3 :)) 20100908T072842: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :I can tell :) 20100908T072842: leafw_!~cardona@pacific.mpi-cbg.de: I can tell :) 20100908T072857: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :then go the ControlWindow route 20100908T072857: leafw_!~cardona@pacific.mpi-cbg.de: then go the ControlWindow route 20100908T072859: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i'll try the other suggestion then 20100908T072859: oosp!~mark@ini-firewall.uzh.ch: i'll try the other suggestion then 20100908T073034: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :ControlWindow.getActive() also returns None :( 20100908T073034: oosp!~mark@ini-firewall.uzh.ch: ControlWindow.getActive() also returns None :( 20100908T073049: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :?? 20100908T073049: leafw_!~cardona@pacific.mpi-cbg.de: ?? 20100908T073057: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :is the TrakEM@ window open? 20100908T073057: leafw_!~cardona@pacific.mpi-cbg.de: is the TrakEM@ window open? 20100908T073113: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :yes 20100908T073113: oosp!~mark@ini-firewall.uzh.ch: yes 20100908T073115: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :then we can try the Frame route 20100908T073115: leafw_!~cardona@pacific.mpi-cbg.de: then we can try the Frame route 20100908T073120: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i wonder if it's a jython problem 20100908T073120: oosp!~mark@ini-firewall.uzh.ch: i wonder if it's a jython problem 20100908T073133: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :no, shouldn't be 20100908T073133: leafw_!~cardona@pacific.mpi-cbg.de: no, shouldn't be 20100908T073200: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :definitely only one fiji running 20100908T073200: oosp!~mark@ini-firewall.uzh.ch: definitely only one fiji running 20100908T073223: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :this is all very odd, though, surely? 20100908T073223: oosp!~mark@ini-firewall.uzh.ch: this is all very odd, though, surely? 20100908T073254: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :for fr in Frame.yes 20100908T073254: leafw_!~cardona@pacific.mpi-cbg.de: for fr in Frame.yes 20100908T073257: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes 20100908T073257: leafw_!~cardona@pacific.mpi-cbg.de: yes 20100908T073258: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :odd 20100908T073258: leafw_!~cardona@pacific.mpi-cbg.de: odd 20100908T073316: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :for fr in Frame.getFrames(): print fr 20100908T073316: leafw_!~cardona@pacific.mpi-cbg.de: for fr in Frame.getFrames(): print fr 20100908T073329: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :hang on 20100908T073329: oosp!~mark@ini-firewall.uzh.ch: hang on 20100908T073333: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :now i have lots of display windows 20100908T073333: oosp!~mark@ini-firewall.uzh.ch: now i have lots of display windows 20100908T073337: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :one of them will be the Display frame. Then call getContent().getComponent(0) etc until getting the DisplayCanvas 20100908T073337: leafw_!~cardona@pacific.mpi-cbg.de: one of them will be the Display frame. Then call getContent().getComponent(0) etc until getting the DisplayCanvas 20100908T073400: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :there is also Project.getProjects() by the way! I forgot. Another static handle. 20100908T073400: leafw_!~cardona@pacific.mpi-cbg.de: there is also Project.getProjects() by the way! I forgot. Another static handle. 20100908T073414: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :so: pr = Project.getProjects()[0] 20100908T073414: leafw_!~cardona@pacific.mpi-cbg.de: so: pr = Project.getProjects()[0] 20100908T073456: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :oh, so each time i double click on a layer node i get a new display window 20100908T073456: oosp!~mark@ini-firewall.uzh.ch: oh, so each time i double click on a layer node i get a new display window 20100908T073501: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes 20100908T073501: leafw_!~cardona@pacific.mpi-cbg.de: yes 20100908T073514: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :or rightclick "show" on the node 20100908T073514: leafw_!~cardona@pacific.mpi-cbg.de: or rightclick "show" on the node 20100908T073620: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> prs = Project.getProjects() 20100908T073620: oosp!~mark@ini-firewall.uzh.ch: >>> prs = Project.getProjects() 20100908T073620: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :>>> print(prs) 20100908T073620: oosp!~mark@ini-firewall.uzh.ch: >>> print(prs) 20100908T073620: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :[] 20100908T073620: oosp!~mark@ini-firewall.uzh.ch: [] 20100908T073626: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :woah 20100908T073626: leafw_!~cardona@pacific.mpi-cbg.de: woah 20100908T073647: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :somehow, your project was closed, but it didn't close 20100908T073647: leafw_!~cardona@pacific.mpi-cbg.de: somehow, your project was closed, but it didn't close 20100908T073657: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :and all pointers are null 20100908T073657: leafw_!~cardona@pacific.mpi-cbg.de: and all pointers are null 20100908T073705: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :so the only remaining route is the Frame.getFrames() 20100908T073705: leafw_!~cardona@pacific.mpi-cbg.de: so the only remaining route is the Frame.getFrames() 20100908T073705: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :should i just try saving it? 20100908T073705: oosp!~mark@ini-firewall.uzh.ch: should i just try saving it? 20100908T073717: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes, try saving it. Backup the XML first .. 20100908T073717: leafw_!~cardona@pacific.mpi-cbg.de: yes, try saving it. Backup the XML first .. 20100908T073729: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :save and search for the id in the XML file 20100908T073729: leafw_!~cardona@pacific.mpi-cbg.de: save and search for the id in the XML file 20100908T073745: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :search with "12345" colons so that the number won't be a random one 20100908T073745: leafw_!~cardona@pacific.mpi-cbg.de: search with "12345" colons so that the number won't be a random one 20100908T073754: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :or directly oid="12345" 20100908T073754: leafw_!~cardona@pacific.mpi-cbg.de: or directly oid="12345" 20100908T073828: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :(committing the old XML now) 20100908T073828: oosp!~mark@ini-firewall.uzh.ch: (committing the old XML now) 20100908T074002: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :when you say the id, i guess you mean that of the treeline this arealist was duplicated from... 20100908T074002: oosp!~mark@ini-firewall.uzh.ch: when you say the id, i guess you mean that of the treeline this arealist was duplicated from... 20100908T074015: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :no, the id of the areatree itself, the new one 20100908T074015: leafw_!~cardona@pacific.mpi-cbg.de: no, the id of the areatree itself, the new one 20100908T074020: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :or you don't have it at all ? 20100908T074020: leafw_!~cardona@pacific.mpi-cbg.de: or you don't have it at all ? 20100908T074046: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :if you don't have it at all, search for t2_area XML entries 20100908T074046: leafw_!~cardona@pacific.mpi-cbg.de: if you don't have it at all, search for t2_area XML entries 20100908T074130: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :yeah, that was the problem - it didn't have an ID displayed 20100908T074130: oosp!~mark@ini-firewall.uzh.ch: yeah, that was the problem - it didn't have an ID displayed 20100908T074142: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right, but there's only one t2_areatree 20100908T074142: oosp!~mark@ini-firewall.uzh.ch: right, but there's only one t2_areatree 20100908T074155: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :so is there? 20100908T074155: leafw_!~cardona@pacific.mpi-cbg.de: so is there? 20100908T074205: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :which has oid 87638 20100908T074205: oosp!~mark@ini-firewall.uzh.ch: which has oid 87638 20100908T074227: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ok so there should be two entries for oid="87638" 20100908T074227: leafw_!~cardona@pacific.mpi-cbg.de: ok so there should be two entries for oid="87638" 20100908T074234: *: <== :rubikcube_work!~rubikcube@134.76.218.177 JOIN :#fiji-devel 20100908T074300: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the tree entry under and the data entry under 20100908T074300: leafw_!~cardona@pacific.mpi-cbg.de: the tree entry under and the data entry under 20100908T074331: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :is one of the two missing? 20100908T074331: leafw_!~cardona@pacific.mpi-cbg.de: is one of the two missing? 20100908T074350: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :there's only one of them 20100908T074350: oosp!~mark@ini-firewall.uzh.ch: there's only one of them 20100908T074355: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i'm just checking which 20100908T074355: oosp!~mark@ini-firewall.uzh.ch: i'm just checking which 20100908T074355: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the second, I hope 20100908T074355: leafw_!~cardona@pacific.mpi-cbg.de: the second, I hope 20100908T074405: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :the one with lots of t2_node elements 20100908T074405: oosp!~mark@ini-firewall.uzh.ch: the one with lots of t2_node elements 20100908T074409: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :good! 20100908T074409: leafw_!~cardona@pacific.mpi-cbg.de: good! 20100908T074416: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :does it have t2_area elements in it? 20100908T074416: leafw_!~cardona@pacific.mpi-cbg.de: does it have t2_area elements in it? 20100908T074420: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :in some nodes? 20100908T074420: leafw_!~cardona@pacific.mpi-cbg.de: in some nodes? 20100908T074553: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :actually, there are two area trees - one has lots of t2_area elements 20100908T074553: oosp!~mark@ini-firewall.uzh.ch: actually, there are two area trees - one has lots of t2_area elements 20100908T074603: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :so that earlier oid may have been the wrong one 20100908T074603: oosp!~mark@ini-firewall.uzh.ch: so that earlier oid may have been the wrong one 20100908T074609: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :? 20100908T074609: leafw_!~cardona@pacific.mpi-cbg.de: ? 20100908T074659: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :did you create more than one? I have just checked my XML and there aren't any 20100908T074659: leafw_!~cardona@pacific.mpi-cbg.de: did you create more than one? I have just checked my XML and there aren't any 20100908T074724: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel : has lots of t2_nodes and t2_areas, but has just t2_nodes - i guess i created the latter by mistake at some stage 20100908T074724: oosp!~mark@ini-firewall.uzh.ch: has lots of t2_nodes and t2_areas, but has just t2_nodes - i guess i created the latter by mistake at some stage 20100908T074725: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :so there should be two: one as part of the project objects, empty, and one in the layerset 20100908T074725: leafw_!~cardona@pacific.mpi-cbg.de: so there should be two: one as part of the project objects, empty, and one in the layerset 20100908T074748: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right 20100908T074748: oosp!~mark@ini-firewall.uzh.ch: right 20100908T074758: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :so i need to add them to the project 20100908T074758: oosp!~mark@ini-firewall.uzh.ch: so i need to add them to the project 20100908T074759: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :no idea, bu the key here is to make secure copies of this XML file which has the data in it 20100908T074759: leafw_!~cardona@pacific.mpi-cbg.de: no idea, bu the key here is to make secure copies of this XML file which has the data in it 20100908T074821: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i'll commit it now 20100908T074821: oosp!~mark@ini-firewall.uzh.ch: i'll commit it now 20100908T074827: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes, they have to be added manually to the project tree, 20100908T074827: leafw_!~cardona@pacific.mpi-cbg.de: yes, they have to be added manually to the project tree, 20100908T074838: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :ok, no problem 20100908T074838: oosp!~mark@ini-firewall.uzh.ch: ok, no problem 20100908T074919: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :and presumably i should add areatree to the neuron template as well 20100908T074919: oosp!~mark@ini-firewall.uzh.ch: and presumably i should add areatree to the neuron template as well 20100908T074944: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :and also add t2_areatree to the DOCTYPE entry for "neuron" (should have "nucleus" and "t2_treeline", "pre", post", ... 20100908T074944: leafw_!~cardona@pacific.mpi-cbg.de: and also add t2_areatree to the DOCTYPE entry for "neuron" (should have "nucleus" and "t2_treeline", "pre", post", ... 20100908T074951: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes 20100908T074951: leafw_!~cardona@pacific.mpi-cbg.de: yes 20100908T074953: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the DOCTYPE 20100908T074953: leafw_!~cardona@pacific.mpi-cbg.de: the DOCTYPE 20100908T075005: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right 20100908T075005: oosp!~mark@ini-firewall.uzh.ch: right 20100908T075012: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :ok, i'll quite TrakEM2 and try all that 20100908T075012: oosp!~mark@ini-firewall.uzh.ch: ok, i'll quite TrakEM2 and try all that 20100908T075015: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :s/quite/quit/ 20100908T075015: oosp!~mark@ini-firewall.uzh.ch: s/quite/quit/ 20100908T075020: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :currently it has "treeline", so I guess it needs "areatree" 20100908T075020: leafw_!~cardona@pacific.mpi-cbg.de: currently it has "treeline", so I guess it needs "areatree" 20100908T075028: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right 20100908T075028: oosp!~mark@ini-firewall.uzh.ch: right 20100908T075036: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :hum 20100908T075036: leafw_!~cardona@pacific.mpi-cbg.de: hum 20100908T075041: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :before ou close it 20100908T075041: leafw_!~cardona@pacific.mpi-cbg.de: before ou close it 20100908T075056: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :you may want to rename the XML file and reopen it, so that both are open 20100908T075056: leafw_!~cardona@pacific.mpi-cbg.de: you may want to rename the XML file and reopen it, so that both are open 20100908T075100: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :and you can compare 20100908T075100: leafw_!~cardona@pacific.mpi-cbg.de: and you can compare 20100908T075123: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :but restart fiji before doing any further edits 20100908T075123: leafw_!~cardona@pacific.mpi-cbg.de: but restart fiji before doing any further edits 20100908T080143: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :so, to add the i need an id as well as the oid - should i just invent a Large Number for the id? 20100908T080143: oosp!~mark@ini-firewall.uzh.ch: so, to add the i need an id as well as the oid - should i just invent a Large Number for the id? 20100908T080155: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :hum 20100908T080155: leafw_!~cardona@pacific.mpi-cbg.de: hum 20100908T080204: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes 20100908T080204: leafw_!~cardona@pacific.mpi-cbg.de: yes 20100908T080223: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :test that it doesn't exist, search the XML for oid="99999" or so 20100908T080223: leafw_!~cardona@pacific.mpi-cbg.de: test that it doesn't exist, search the XML for oid="99999" or so 20100908T080238: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ideally choose an id close to that of the areatree 20100908T080238: leafw_!~cardona@pacific.mpi-cbg.de: ideally choose an id close to that of the areatree 20100908T080303: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :but it doesn't matter indeed. 20100908T080303: leafw_!~cardona@pacific.mpi-cbg.de: but it doesn't matter indeed. 20100908T080636: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :i think that n+1 is free in both cases 20100908T080636: oosp!~mark@ini-firewall.uzh.ch: i think that n+1 is free in both cases 20100908T080647: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right, i'm trying to load my edited one alongside the original 20100908T080647: oosp!~mark@ini-firewall.uzh.ch: right, i'm trying to load my edited one alongside the original 20100908T080654: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ok 20100908T080654: leafw_!~cardona@pacific.mpi-cbg.de: ok 20100908T080758: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :"TrakEM2 detected a crash" <-- expected, as i understand it 20100908T080758: oosp!~mark@ini-firewall.uzh.ch: "TrakEM2 detected a crash" <-- expected, as i understand it 20100908T080811: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes 20100908T080811: leafw_!~cardona@pacific.mpi-cbg.de: yes 20100908T080930: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :ok, that looks as if it's OK - i now have two "treeline #whatever [areatree]" elements in the project objects tree 20100908T080930: oosp!~mark@ini-firewall.uzh.ch: ok, that looks as if it's OK - i now have two "treeline #whatever [areatree]" elements in the project objects tree 20100908T080941: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ok! 20100908T080941: leafw_!~cardona@pacific.mpi-cbg.de: ok! 20100908T080942: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :and i can select and add to them 20100908T080942: oosp!~mark@ini-firewall.uzh.ch: and i can select and add to them 20100908T080944: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :phew, 20100908T080944: oosp!~mark@ini-firewall.uzh.ch: phew, 20100908T080945: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :thanks 20100908T080945: oosp!~mark@ini-firewall.uzh.ch: thanks 20100908T080948: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :yes, phew 20100908T080948: leafw_!~cardona@pacific.mpi-cbg.de: yes, phew 20100908T080956: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :I pushed fixes for it to T2 git repos 20100908T080956: leafw_!~cardona@pacific.mpi-cbg.de: I pushed fixes for it to T2 git repos 20100908T081013: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :and "show in 3d" for that works too now 20100908T081013: oosp!~mark@ini-firewall.uzh.ch: and "show in 3d" for that works too now 20100908T081017: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel ::) 20100908T081017: oosp!~mark@ini-firewall.uzh.ch: :) 20100908T081019: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :it wasn't adding the template to the parent, it expected the template to be there but didn't check for it 20100908T081019: leafw_!~cardona@pacific.mpi-cbg.de: it wasn't adding the template to the parent, it expected the template to be there but didn't check for it 20100908T081027: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :great, i'll quite, update and carry on 20100908T081027: oosp!~mark@ini-firewall.uzh.ch: great, i'll quite, update and carry on 20100908T081030: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :now it adds the template automatically 20100908T081030: leafw_!~cardona@pacific.mpi-cbg.de: now it adds the template automatically 20100908T081034: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :great :) 20100908T081034: leafw_!~cardona@pacific.mpi-cbg.de: great :) 20100908T081036: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :s/quite/quit/ 20100908T081036: oosp!~mark@ini-firewall.uzh.ch: s/quite/quit/ 20100908T081044: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :thanks, sorry to take up all that time 20100908T081044: oosp!~mark@ini-firewall.uzh.ch: thanks, sorry to take up all that time 20100908T081049: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :np! 20100908T081049: leafw_!~cardona@pacific.mpi-cbg.de: np! 20100908T081107: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :when are you back here, BTW? sorry, i've forgotten the date you said 20100908T081107: oosp!~mark@ini-firewall.uzh.ch: when are you back here, BTW? sorry, i've forgotten the date you said 20100908T081123: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :15th 20100908T081123: leafw_!~cardona@pacific.mpi-cbg.de: 15th 20100908T081131: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :or rather 16th morning 20100908T081131: leafw_!~cardona@pacific.mpi-cbg.de: or rather 16th morning 20100908T081135: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :ah, ok 20100908T081135: oosp!~mark@ini-firewall.uzh.ch: ah, ok 20100908T081141: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :so i'm in edinburgh by then 20100908T081141: oosp!~mark@ini-firewall.uzh.ch: so i'm in edinburgh by then 20100908T081149: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :I saw the absence :) 20100908T081149: leafw_!~cardona@pacific.mpi-cbg.de: I saw the absence :) 20100908T081213: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :my talk is on the 16th, and i'm taking two days of "holiday" to work with douglas on papers from my phd - i hope that's ok 20100908T081213: oosp!~mark@ini-firewall.uzh.ch: my talk is on the 16th, and i'm taking two days of "holiday" to work with douglas on papers from my phd - i hope that's ok 20100908T081221: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :and don't count paper writing as holidays, ... doesn't sound right 20100908T081221: leafw_!~cardona@pacific.mpi-cbg.de: and don't count paper writing as holidays, ... doesn't sound right 20100908T081240: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :well, since it's not INI work.. 20100908T081240: oosp!~mark@ini-firewall.uzh.ch: well, since it's not INI work.. 20100908T081328: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :anyway, i'd better get back to this areatree :) 20100908T081328: oosp!~mark@ini-firewall.uzh.ch: anyway, i'd better get back to this areatree :) 20100908T081339: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :the lasso is very helpful, i think 20100908T081339: oosp!~mark@ini-firewall.uzh.ch: the lasso is very helpful, i think 20100908T081525: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the lasso ? 20100908T081525: leafw_!~cardona@pacific.mpi-cbg.de: the lasso ? 20100908T081545: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the pencil tool that grows with levelsets? 20100908T081545: leafw_!~cardona@pacific.mpi-cbg.de: the pencil tool that grows with levelsets? 20100908T081601: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :ah, the pencil with shift or so, that grows with Johannes' lasso! 20100908T081601: leafw_!~cardona@pacific.mpi-cbg.de: ah, the pencil with shift or so, that grows with Johannes' lasso! 20100908T082152: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :yeah - and the fast-marching is useful too 20100908T082152: oosp!~mark@ini-firewall.uzh.ch: yeah - and the fast-marching is useful too 20100908T082241: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :for clean profiles like axons it works indeed 20100908T082241: leafw_!~cardona@pacific.mpi-cbg.de: for clean profiles like axons it works indeed 20100908T082252: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :is it possible to add areas to an areatree in a slice that doesn't have a node in it? (attaching the area to a node in the slice above, say) 20100908T082252: oosp!~mark@ini-firewall.uzh.ch: is it possible to add areas to an areatree in a slice that doesn't have a node in it? (attaching the area to a node in the slice above, say) 20100908T082318: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :no 20100908T082318: leafw_!~cardona@pacific.mpi-cbg.de: no 20100908T082326: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :the area is the "data load" of a node. 20100908T082326: leafw_!~cardona@pacific.mpi-cbg.de: the area is the "data load" of a node. 20100908T082345: *: <== :leafw_!~cardona@pacific.mpi-cbg.de PRIVMSG #fiji-devel :you'll need to add a node there, with a "not a branch" tag or so 20100908T082345: leafw_!~cardona@pacific.mpi-cbg.de: you'll need to add a node there, with a "not a branch" tag or so 20100908T082356: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :right, ok 20100908T082356: oosp!~mark@ini-firewall.uzh.ch: right, ok 20100908T083520: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de JOIN :#fiji-devel 20100908T083520: *: <== :ChanServ!ChanServ@services. MODE #fiji-devel +o dscho 20100908T102027: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :oosp: Hi! 20100908T102027: dscho!~dscho@cbg-off-client.mpi-cbg.de: oosp: Hi! 20100908T102034: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :oosp: have you seen my newest commit in fiji.git? 20100908T102034: dscho!~dscho@cbg-off-client.mpi-cbg.de: oosp: have you seen my newest commit in fiji.git? 20100908T102209: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :yes, very useful :) 20100908T102209: oosp!~mark@ini-firewall.uzh.ch: yes, very useful :) 20100908T102223: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :so the pre-tutorial instructions can also include "cache the sample images"? 20100908T102223: oosp!~mark@ini-firewall.uzh.ch: so the pre-tutorial instructions can also include "cache the sample images"? 20100908T102240: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :Right. 20100908T102240: dscho!~dscho@cbg-off-client.mpi-cbg.de: Right. 20100908T105545: *: <== :rubikcube_work!~rubikcube@134.76.218.177 QUIT :Quit: rubikcube_work 20100908T112741: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de JOIN :#fiji-devel 20100908T112747: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :chalkie666: hi! 20100908T112747: dscho!~dscho@cbg-off-client.mpi-cbg.de: chalkie666: hi! 20100908T112803: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :Hi Folks! 20100908T112803: chalkie666!~dan@cbg-off-client.mpi-cbg.de: Hi Folks! 20100908T112804: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :whats the right way to deal with 2 channel images in imglib? 20100908T112804: chalkie666!~dan@cbg-off-client.mpi-cbg.de: whats the right way to deal with 2 channel images in imglib? 20100908T112805: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :[9/8/10 1:27:06 PM] Daniel White: we ant to make a cursor that works with 2 channels of an image at the same time... ie red and green channels 20100908T112805: chalkie666!~dan@cbg-off-client.mpi-cbg.de: [9/8/10 1:27:06 PM] Daniel White: we ant to make a cursor that works with 2 channels of an image at the same time... ie red and green channels 20100908T112846: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :chalkie666: AFAICT this has not been implemented fully yet (look for the "sampler" branch...) 20100908T112846: dscho!~dscho@cbg-off-client.mpi-cbg.de: chalkie666: AFAICT this has not been implemented fully yet (look for the "sampler" branch...) 20100908T113158: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :dscho: incidentally, bug 228 was experience by someone at this course i was on as well 20100908T113158: *: ==> PRIVMSG #fiji-devel :Bug number 228 can be found here: http://pacific.mpi-cbg.de/cgi-bin/bugzilla/show_bug.cgi?id=228 20100908T113158: oosp!~mark@ini-firewall.uzh.ch: dscho: incidentally, bug 228 was experience by someone at this course i was on as well 20100908T113206: *: <== :oosp!~mark@ini-firewall.uzh.ch PRIVMSG #fiji-devel :s/experience/experienced/ 20100908T113206: oosp!~mark@ini-firewall.uzh.ch: s/experience/experienced/ 20100908T113259: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :Yeah. Maybe an Intel graphics card? 20100908T113259: dscho!~dscho@cbg-off-client.mpi-cbg.de: Yeah. Maybe an Intel graphics card? 20100908T115855: *: <== :rubikcube_work!~rubikcube@134.76.218.177 JOIN :#fiji-devel 20100908T133751: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :chalkie666: you said you had a machine with too-old CentOS, so it could not run Fiji... care to give me access to that machine? 20100908T133751: dscho!~dscho@cbg-off-client.mpi-cbg.de: chalkie666: you said you had a machine with too-old CentOS, so it could not run Fiji... care to give me access to that machine? 20100908T152931: *: <== :rubikcube_work!~rubikcube@134.76.218.177 QUIT :Quit: rubikcube_work 20100908T160143: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :i doint know the ip address off hand, we will have to look at it in person. its the deltavision core in room 036 next door to the lmf office 20100908T160143: chalkie666!~dan@cbg-off-client.mpi-cbg.de: i doint know the ip address off hand, we will have to look at it in person. its the deltavision core in room 036 next door to the lmf office 20100908T160228: *: <== :chalkie666!~dan@cbg-off-client.mpi-cbg.de PRIVMSG #fiji-devel :and its super secure because the root password is clearly labelled on the box, fantastic ! 20100908T160228: chalkie666!~dan@cbg-off-client.mpi-cbg.de: and its super secure because the root password is clearly labelled on the box, fantastic ! 20100908T170446: *: <== :dscho!~dscho@cbg-off-client.mpi-cbg.de QUIT :Remote host closed the connection 20100908T170524: *: <== :odinsbane!~melkor@Dyn016153.sfc.Lehigh.EDU JOIN :#fiji-devel 20100908T204231: *: <== :odinsbane!~melkor@Dyn016153.sfc.Lehigh.EDU QUIT :Quit: dammit