def index(request):
timezone.activate(get_tzone(request.user))
ipaddr = get_ip(request)
if ipaddr:
mkdir_on_absent(rs_filepath_info(client_ip_log_file)["foldername"])
ip_log = TimeStamp_HashFile(client_ip_log_file)
ip_log.stamp(ipaddr)
contxt = {
"NichoNode":
NichoNode,
"NichoEdge":
NichoEdge,
"settings":
settings,
"apache_user":
getpass.getuser(),
"acount_minus_wk3":
len(ip_log.get_keys_timerange(timedelta(days=21), timedelta(days=14))),
"acount_minus_wk2":
len(ip_log.get_keys_timerange(timedelta(days=14), timedelta(days=7))),
"acount_minus_wk1":
len(ip_log.get_keys_timerange(timedelta(days=7), timedelta(days=0))),
} # {{ message|safe }}
return render(request, "appNichoAnu/map_Anurag1_3.html", contxt)
# import networkx as nx
from rs_Python_Pack3_copied.Graph_Packages.NetworkX.rsNetworkX_DiGraph1 import rsNetworkX_DiGraph
from rs_Python_Pack3_copied.Graph_Packages.Graph_Draw.DrawNetworkX_simple1_9 \
import KEY_NODE_COORD_XY, \
KEY_DISP_NODE_LABEL, KEY_NODE_LABEL_OFFSET_XY, \
KEY_EDGE_LABEL_LIST, KEY_EDGE_DIRECTION, KEY_EDGE_RELAY_POSS
from appNichoAnu.models import *
from rs_Python_Pack3_copied.General_Packages.FileDirPath.mkdir_on_absent import mkdir_on_absent
from rs_Python_Pack3_copied.General_Packages.FileDirPath.File_Path1 import rs_filepath_info
networkx_pkl_file = os.path.join(settings.UCSD_IAB_WORKDIR, "Media",
"appNichoAnu", "Network",
"NichoAnu_networkx_intermed1_2.pkl")
mkdir_on_absent(rs_filepath_info(networkx_pkl_file)["foldername"])
def del_networkx_rec():
if os.path.isfile(networkx_pkl_file):
os.remove(networkx_pkl_file)
def to_networkx_from_rec(update=False, focus_edge=None):
if not os.path.isfile(networkx_pkl_file) or update:
ogrf = to_networkx()
with open(networkx_pkl_file, "wb") as fw:
pickle.dump(ogrf, fw)
else:
def del_edge(request, edge_id, outer_percent=300):
timezone.activate(get_tzone(request.user))
# edges_objs = Nichoedge.objects.filter(edge_id = edge_id,
# obsolete = False)
edge = NichoEdge.objects.get(id=edge_id)
edge_oldinfo = edge.generate_obsolete()
edge_oldinfo.save()
node_src_x = edge.node_src.pos_x_on_map
node_src_y = edge.node_src.pos_y_on_map
node_tgt_x = edge.node_tgt.pos_x_on_map
node_tgt_y = edge.node_tgt.pos_y_on_map
center_x = (node_src_x + node_tgt_x) / 2
center_y = (node_src_y + node_tgt_y) / 2
x_diff_abs = abs(node_tgt_x - node_src_x)
y_diff_abs = abs(node_tgt_y - node_src_y)
if y_diff_abs >= x_diff_abs * HHEIGHT_DEFAULT / HWIDTH_DEFAULT:
y_width = y_diff_abs
x_width = y_diff_abs * HWIDTH_DEFAULT / HHEIGHT_DEFAULT
else:
x_width = x_diff_abs
y_width = x_diff_abs * HHEIGHT_DEFAULT / HWIDTH_DEFAULT
range_x = [
center_x - x_width / 2 * outer_percent / 100,
center_x + x_width / 2 * outer_percent / 100
]
range_y = [
center_y - y_width / 2 * outer_percent / 100,
center_y + y_width / 2 * outer_percent / 100
]
if (range_x[1] - range_x[0] == HWIDTH_DEFAULT
and range_y[1] - range_y[0] == HHEIGHT_DEFAULT):
fig_face_color = (0.8, 0.8, 0.7)
else:
fig_face_color = (0.8, 0.8, 0.8)
node_vis_id_src = edge.node_src.node_vis_id
node_vis_id_tgt = edge.node_tgt.node_vis_id
edge.delete()
grf = to_networkx_from_rec(update=True)
image_file = os.path.join(settings.UCSD_IMM_WORKDIR, "Media",
"appNichoAnu", "Images", "edges",
"%s.png" % edge_id)
mkdir_on_absent(rs_filepath_info(image_file)["foldername"])
# http://127.0.0.1:8000/UCSD_IMM_media/appNichoAnu/Images/tmp1.png
image_url = '/'.join([
settings.MEDIA_URL.rstrip('/'), "appNichoAnu", "Images", "edges",
"%s.png" % edge_id
])
drawgrf = DrawNetworkX_simple(grf)
drawgrf.output_fig_around_region_simple(
range_x,
range_y,
nodes_central=[node_vis_id_src, node_vis_id_tgt],
node_label_off_num_nodes=1000,
figsize=(6, 6),
fig_face_color=fig_face_color,
title="Edge %s - %s deleted" % (node_vis_id_src, node_vis_id_tgt),
outfile=image_file)
contxt = RequestContext(request, {"edge": edge, "image_url": image_url})
templt = loader.get_template("appNichoAnu/map_Anurag_del_edge1.html")
return HttpResponse(templt.render(contxt))
def edge_info(request, edge_id, outer_percent=300):
timezone.activate(get_tzone(request.user))
# edges_objs = Nichoedge.objects.filter(edge_id = edge_id,
# obsolete = False)
edge = NichoEdge.objects.get(id=edge_id)
edge_oldinfo = edge.generate_obsolete()
if request.method == "POST":
# iform_h = dict([(ikey, request.POST[ikey]) for ikey in request.POST])
# from pprint import pprint
# pprint(iform_h)
if request.POST.get("del_edge", "") == "on":
return HttpResponseRedirect(
reverse("appNichoAnu:del_edge", kwargs={"edge_id": edge_id}))
prev_edge_reliab = edge.reliability
edge_form = NichoEdge_Form(request.POST, instance=edge)
# edge object is already affected at above line.
# The object is returned with edgeform.save(commit = False)
if edge_form.is_valid() and len(edge_form.changed_data):
edge_newinfo = edge_form.save(commit=False)
edge_newinfo.user = request.user
edge_newinfo.timestamp = timezone.now()
if not edge_newinfo.reliability:
if prev_edge_reliab:
edge_newinfo.reliability = prev_edge_reliab
else:
edge_newinfo.reliability = 1
edge_newinfo.save()
edge_oldinfo.save()
to_networkx_from_rec(update=True)
return HttpResponse("Modified!")
else:
from pprint import pprint
pprint(edge_form.errors)
else:
edge_form = NichoEdge_Form(instance=edge)
grf = to_networkx_from_rec(focus_edge=edge)
image_file = os.path.join(settings.UCSD_IAB_WORKDIR, "Media",
"appNichoAnu", "Images", "edges",
"%s.png" % edge_id)
mkdir_on_absent(rs_filepath_info(image_file)["foldername"])
# http://127.0.0.1:8000/UCSD_IMM_media/appNichoAnu/Images/tmp1.png
image_url = '/'.join([
settings.MEDIA_URL.rstrip('/'), "appNichoAnu", "Images", "edges",
"%s.png" % edge_id
])
if True: # not os.path.isfile(image_file):
node_src_x = edge.node_src.pos_x_on_map
node_src_y = edge.node_src.pos_y_on_map
node_tgt_x = edge.node_tgt.pos_x_on_map
node_tgt_y = edge.node_tgt.pos_y_on_map
center_x = (node_src_x + node_tgt_x) / 2
center_y = (node_src_y + node_tgt_y) / 2
x_diff_abs = abs(node_tgt_x - node_src_x)
y_diff_abs = abs(node_tgt_y - node_src_y)
if y_diff_abs >= x_diff_abs * HHEIGHT_DEFAULT / HWIDTH_DEFAULT:
y_width = y_diff_abs
x_width = y_diff_abs * HWIDTH_DEFAULT / HHEIGHT_DEFAULT
else:
x_width = x_diff_abs
y_width = x_diff_abs * HHEIGHT_DEFAULT / HWIDTH_DEFAULT
range_x = [
center_x - x_width / 2 * outer_percent / 100,
center_x + x_width / 2 * outer_percent / 100
]
range_y = [
center_y - y_width / 2 * outer_percent / 100,
center_y + y_width / 2 * outer_percent / 100
]
if (range_x[1] - range_x[0] == HWIDTH_DEFAULT
and range_y[1] - range_y[0] == HHEIGHT_DEFAULT):
fig_face_color = (0.8, 0.8, 0.7)
else:
fig_face_color = (0.8, 0.8, 0.8)
drawgrf = DrawNetworkX_simple(grf)
drawgrf.output_fig_around_region_simple(
range_x,
range_y,
nodes_central=[
edge.node_src.node_vis_id, edge.node_tgt.node_vis_id
],
edges_central=[
(edge.node_src.node_vis_id, edge.node_tgt.node_vis_id),
(edge.node_tgt.node_vis_id, edge.node_src.node_vis_id)
],
node_label_off_num_nodes=1000,
figsize=(6, 6),
fig_face_color=fig_face_color,
title="Edge %s - %s" %
(edge.node_src.node_vis_id, edge.node_tgt.node_vis_id),
outfile=image_file)
contxt = {"edge": edge, "edge_form": edge_form, "image_url": image_url}
return render(request, "appNichoAnu/map_Anurag_edge_info2.html", contxt)
imed_hmdb_to_partialinfo_dfrm = \
pd.io.parsers.read_table(ihmdb_tsv_file,
sep = '\t', header = 0, index_col = 0,
encoding = "latin1")
imed_dfrm = \
imed_hmdb_to_partialinfo_dfrm.loc[:, ("KEGG ID",
"CAS number",
"Wikipidia",
"Name")]
odfrm = imed_dfrm.applymap(lambda ielem: str(ielem).strip())
return odfrm
pkl_file = os.path.join(settings.UCSD_IAB_WORKDIR, "InterMed", "PubData",
"hmdb3_3_partial_dfrm.pkl")
mkdir_on_absent(rs_filepath_info(pkl_file)["foldername"])
pmI2 = Pickle_Manager(source_files=[hmdb_tsv_file],
version_info_h={
"Ver major": "0.54",
},
pkl_file=pkl_file,
verbose=True,
ifunc=generate_hmdb_partialinfo_dfrm,
args=[hmdb_tsv_file],
kwargs={})
hmdb_partial_info_dfrm = pmI2.get_obj()
def node_vis_id_info(request,
node_vis_id,
hwidth=HWIDTH_DEFAULT,
hheight=HHEIGHT_DEFAULT,
offx=0,
offy=0):
hwidth = int(hwidth)
hheight = int(hheight)
offx = int(offx)
offy = int(offy)
timezone.activate(get_tzone(request.user))
timezone_now = timezone.now()
node = NichoNode.objects.get(node_vis_id=node_vis_id)
node_oldinfo = node.generate_obsolete(timezone_now)
node_pos_x = node.pos_x_on_map
node_pos_y = node.pos_y_on_map
if request.method == "POST":
if request.POST.get("del_node", "") == "on":
return HttpResponseRedirect(
reverse("appNichoAnu:del_node",
kwargs={"node_vis_id": node_vis_id}))
iform_h = dict([(ikey, request.POST[ikey]) for ikey in request.POST])
iform_h["node_vis_id"] = node.node_vis_id
iform_h["reliability"] = node.reliability
node_form = NichoNode_Form(iform_h, instance=node)
# node object is already affected at above line.
# The object is returned with nodeform.save(commit = False)
from pprint import pprint
pprint(iform_h)
print(".....")
if node_form.is_valid() and len(node_form.changed_data):
node_newinfo = node_form.save(commit=False)
node_newinfo.user = request.user
node_newinfo.timestamp = timezone.now()
# New time stamp!
node_newinfo.save()
node_oldinfo.save()
to_networkx_from_rec(update=True)
return HttpResponse("Modified!")
else:
from pprint import pprint
pprint(node_form.errors)
else:
node_form = NichoNode_Form(instance=node)
grf = to_networkx_from_rec()
image_file = os.path.join(settings.UCSD_IAB_WORKDIR, "Media",
"appNichoAnu", "Images", "nodes",
"%s.png" % node_vis_id)
mkdir_on_absent(rs_filepath_info(image_file)["foldername"])
# http://127.0.0.1:8000/UCSD_IMM_media/appNichoAnu/Images/tmp1.png
image_url = '/'.join([
settings.MEDIA_URL.rstrip('/'), "appNichoAnu", "Images", "nodes",
"%s.png" % node_vis_id
])
if True: # not os.path.isfile(image_file):
drawgrf = DrawNetworkX_simple(grf)
if hwidth == HWIDTH_DEFAULT and hheight == HHEIGHT_DEFAULT:
fig_face_color = (0.8, 0.8, 0.7)
else:
fig_face_color = (0.8, 0.8, 0.8)
nodes_drawn, edges_drawn = \
drawgrf.output_fig_around_region_simple(
[node_pos_x - hwidth + offx, node_pos_x + hwidth + offx],
[node_pos_y - hheight + offy, node_pos_y + hheight + offy],
nodes_central = [ node_vis_id ],
node_label_off_num_nodes = 1000,
figsize = (6, 6),
fig_face_color = fig_face_color,
title = "Network around %s" % node_vis_id,
outfile = image_file)
# for nodenam in nodes_drawn:
# print("Getting", nodenam)
# print(NichoNode.objects.get(node_vis_id = nodenam))
nodes_drawn = [
NichoNode.objects.get(node_vis_id=nodenam)
for nodenam in nodes_drawn
]
print("Nodes drawn:", nodes_drawn)
else:
nodes_drawn = []
hwidth_zi = int(hwidth / 1.5)
if hwidth_zi < 2:
hwidth_zi = 2
hheight_zi = int(hheight / 1.5)
if hheight_zi < 2:
hheight_zi = 2
zoom_in_param = {
"hwidth": hwidth_zi,
"hheight": hheight_zi,
"offx": offx,
"offy": offy
}
zoom_out_param = {
"hwidth": int(hwidth * 1.5),
"hheight": int(hheight * 1.5),
"offx": offx,
"offy": offy
}
shift_left_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": int(offx - hwidth * 0.5),
"offy": offy
}
shift_right_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": int(offx + hwidth * 0.5),
"offy": offy
}
shift_down_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": offx,
"offy": int(offy - hheight * 0.5)
}
shift_up_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": offx,
"offy": int(offy + hheight * 0.5)
}
contxt = {
"node": node,
"node_form": node_form,
"image_url": image_url,
"nodes_drawn": nodes_drawn,
"zoom_in_param": zoom_in_param,
"zoom_out_param": zoom_out_param,
"shift_left_param": shift_left_param,
"shift_right_param": shift_right_param,
"shift_up_param": shift_up_param,
"shift_down_param": shift_down_param,
}
return render(request, "appNichoAnu/map_Anurag_node_info4.html", contxt)
def del_node(request,
node_vis_id,
hwidth=HWIDTH_DEFAULT,
hheight=HHEIGHT_DEFAULT,
offx=0,
offy=0):
hwidth = int(hwidth)
hheight = int(hheight)
offx = int(offx)
offy = int(offy)
timezone.activate(get_tzone(request.user))
timezone_now = timezone.now()
node = NichoNode.objects.get(node_vis_id=node_vis_id)
node_pos_x = node.pos_x_on_map
node_pos_y = node.pos_y_on_map
node_oldinfo = node.generate_obsolete(timezone_now)
node_oldinfo.save()
edges_deleted_str = []
for edge in node.assoc_edges():
edge_oldinfo = edge.generate_obsolete(timezone_now)
edge_oldinfo.save()
edges_deleted_str = str(edge)
edge.delete()
node.delete()
grf = to_networkx_from_rec(update=True)
image_file = os.path.join(settings.UCSD_IMM_WORKDIR, "Media",
"appNichoAnu", "Images", "nodes",
"%s.png" % node_vis_id)
mkdir_on_absent(rs_filepath_info(image_file)["foldername"])
# http://127.0.0.1:8000/UCSD_IMM_media/appNichoAnu/Images/tmp1.png
image_url = '/'.join([
settings.MEDIA_URL.rstrip('/'), "appNichoAnu", "Images", "nodes",
"%s.png" % node_vis_id
])
drawgrf = DrawNetworkX_simple(grf)
if hwidth == HWIDTH_DEFAULT and hheight == HHEIGHT_DEFAULT:
fig_face_color = (0.8, 0.8, 0.7)
else:
fig_face_color = (0.8, 0.8, 0.8)
nodes_drawn, edges_drawn = \
drawgrf.output_fig_around_region_simple(
[node_pos_x - hwidth + offx, node_pos_x + hwidth + offx],
[node_pos_y - hheight + offy, node_pos_y + hheight + offy],
nodes_central = [ node_vis_id ],
node_label_off_num_nodes = 1000,
figsize = (6, 6),
fig_face_color = fig_face_color,
title = "Network around %s" % node_vis_id,
outfile = image_file)
nodes_drawn = [
NichoNode.objects.get(node_vis_id=nodenam) for nodenam in nodes_drawn
]
print("Nodes drawn:", nodes_drawn)
hwidth_zi = int(hwidth / 1.5)
if hwidth_zi < 2:
hwidth_zi = 2
hheight_zi = int(hheight / 1.5)
if hheight_zi < 2:
hheight_zi = 2
zoom_in_param = {
"hwidth": hwidth_zi,
"hheight": hheight_zi,
"offx": offx,
"offy": offy
}
zoom_out_param = {
"hwidth": int(hwidth * 1.5),
"hheight": int(hheight * 1.5),
"offx": offx,
"offy": offy
}
shift_left_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": int(offx - hwidth * 0.5),
"offy": offy
}
shift_right_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": int(offx + hwidth * 0.5),
"offy": offy
}
shift_down_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": offx,
"offy": int(offy - hheight * 0.5)
}
shift_up_param = {
"hwidth": hwidth,
"hheight": hheight,
"offx": offx,
"offy": int(offy + hheight * 0.5)
}
contxt = RequestContext(
request, {
"image_url": image_url,
"nodes_drawn": nodes_drawn,
"zoom_in_param": zoom_in_param,
"zoom_out_param": zoom_out_param,
"shift_left_param": shift_left_param,
"shift_right_param": shift_right_param,
"shift_up_param": shift_up_param,
"shift_down_param": shift_down_param,
})
templt = loader.get_template("appNichoAnu/map_Anurag_del_node1.html")
return HttpResponse(templt.render(contxt))