<div dir="ltr">Hi, <div>I'm trying to use chimera to adjust angles in my polymer.</div><div>First: Probably I found a bug: when I typed "adjust angle 90 #0:4@C #0:5@C #0:6@C" in the command line, it reported that "the degree should be a number". After I changed line 488 in /Chimera/share/Midas/midas_text.py to "degrees, spec = args.split(None,1)", the command works.</div><div><br></div><div>Second: still about "adjust angle", if the polymer is a straight line, the command doesn't work, while it works for a random distributed polymer. For the line polymer, type "adjust angle 90 #0:4@C #0:5@C #0:6@C" and then "angle #0:4@C #0:5@C #0:6@C", it returns 180 degree.</div><div><br></div><div>Below is the pdb example:</div><div>line polymer:</div><div><div>ATOM 1 C DA 1 0.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 2 C DA 2 1.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 3 C DA 3 2.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 4 C DA 4 3.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 5 C DA 5 4.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 6 C DA 6 5.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 7 C DA 7 6.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 8 C DA 8 7.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 9 C DA 9 8.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 10 C DA 10 9.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 11 C DA 11 10.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 12 C DA 12 11.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 13 C DA 13 12.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 14 C DA 14 13.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 15 C DA 15 14.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 16 C DA 16 15.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 17 C DA 17 16.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 18 C DA 18 17.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 19 C DA 19 18.000 0.000 0.000 1.00 0.00 C</div><div>ATOM 20 C DA 20 19.000 0.000 0.000 1.00 0.00 C</div><div>CONECT 1 2</div><div>CONECT 2 1 3</div><div>CONECT 3 2 4</div><div>CONECT 4 3 5</div><div>CONECT 5 4 6</div><div>CONECT 6 5 7</div><div>CONECT 7 6 8</div><div>CONECT 8 7 9</div><div>CONECT 9 8 10</div><div>CONECT 10 9 11</div><div>CONECT 11 10 12</div><div>CONECT 12 11 13</div><div>CONECT 13 12 14</div><div>CONECT 14 13 15</div><div>CONECT 15 14 16</div><div>CONECT 16 15 17</div><div>CONECT 17 16 18</div><div>CONECT 18 17 19</div><div>CONECT 19 18 20</div><div>CONECT 20 19</div><div>END</div></div><div>random polymer:</div><div><div>ATOM 1 C DA 1 -7.600 -3.500 -1.800 1.00 0.00 C</div><div>ATOM 2 C DA 2 -6.600 -4.500 0.200 1.00 0.00 C</div><div>ATOM 3 C DA 3 -3.600 -2.500 -0.800 1.00 0.00 C</div><div>ATOM 4 C DA 4 -3.600 -2.500 -1.800 1.00 0.00 C</div><div>ATOM 5 C DA 5 -3.600 -2.500 -2.800 1.00 0.00 C</div><div>ATOM 6 C DA 6 -3.600 -2.500 -3.800 1.00 0.00 C</div><div>ATOM 7 C DA 7 -3.600 -2.500 -4.800 1.00 0.00 C</div><div>ATOM 8 C DA 8 -1.600 3.500 -2.800 1.00 0.00 C</div><div>ATOM 9 C DA 9 0.400 3.500 -3.800 1.00 0.00 C</div><div>ATOM 10 C DA 10 -0.600 0.500 -3.800 1.00 0.00 C</div><div>ATOM 11 C DA 11 -1.600 1.500 -1.800 1.00 0.00 C</div><div>ATOM 12 C DA 12 -0.600 0.500 0.200 1.00 0.00 C</div><div>ATOM 13 C DA 13 -1.600 2.500 2.200 1.00 0.00 C</div><div>ATOM 14 C DA 14 1.400 2.500 2.200 1.00 0.00 C</div><div>ATOM 15 C DA 15 2.400 0.500 4.200 1.00 0.00 C</div><div>ATOM 16 C DA 16 5.400 0.500 4.200 1.00 0.00 C</div><div>ATOM 17 C DA 17 6.400 1.500 2.200 1.00 0.00 C</div><div>ATOM 18 C DA 18 7.400 -1.500 2.200 1.00 0.00 C</div><div>ATOM 19 C DA 19 7.400 -1.500 5.200 1.00 0.00 C</div><div>ATOM 20 C DA 20 9.400 -0.500 6.200 1.00 0.00 C</div><div>CONECT 1 2</div><div>CONECT 2 1 3</div><div>CONECT 3 2 4</div><div>CONECT 4 3 5</div><div>CONECT 5 4 6</div><div>CONECT 6 5 7</div><div>CONECT 7 6 8</div><div>CONECT 8 7 9</div><div>CONECT 9 8 10</div><div>CONECT 10 9 11</div><div>CONECT 11 10 12</div><div>CONECT 12 11 13</div><div>CONECT 13 12 14</div><div>CONECT 14 13 15</div><div>CONECT 15 14 16</div><div>CONECT 16 15 17</div><div>CONECT 17 16 18</div><div>CONECT 18 17 19</div><div>CONECT 19 18 20</div><div>CONECT 20 19</div><div>END</div></div><div><br></div><div><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div>------------------</div><div>Best Wishes!</div><div>Jiying Jia</div></div></div></div></div></div>
</div></div>