Missing CS-HM-Rosetta Binary files

[Anonymous]

Dear All,

I try to determine protein structures using CS-HM-Rosetta.

It is stated in the supporting information (http://www.pnas.org/lookup/suppl/doi:10.1073/pnas.1202485109/-/DCSupplem…) that we need  execution of “cm_scripts/bin/predict_distances.pl sequence.fasta sequence.aln –aln_format grishin –outfile sequence.dist_csts” in order to generate the homology constraints.

Unfortunately, while running the following command: “predict_distances.pl query.hhr query.fasta –aln_format grishin”

I get the following result: 

alignment between query, 3p7nA (e_value = 4e-16) (ln_e_value = -35.4550671267848)

Error: executable /Users/mariuswanko/dev/rosetta/main/source/bin//bin/batch_distances.macosclangrelease doesn’t exist!

I can not find the batch_distances.macosclangrelease binary file in my Rosetta3 installation

 

Thanks in advance,

Marius

 

[Anonymous]

It looks like that application hadn’t  been publically released.

I’ll fix the oversight for future versions of the weekly release, but until those are made public, I’ll PM you the necessary file. You would then place that in your Rosetta directory (in rosetta/main/source/src/apps/public/analysis), add the appropriate line to rosetta/main/source/src/apps.src.settings, and then recompile with the same scons command you used originally. (This should be relatively fast, as it won’t need to recompile everything.)

[Anonymous]

Thank you Mr Rmoretti for your help. I waiting for the necessary file

[Anonymous]

Dear moretti,

I have received the file you sent me and by following the instructions that you gave me, I have solved the problem.

Thank you for help.

However, while running the following command: “predict_distances.pl query.hhr query.fasta –aln_format grishin”, I have received another error:

read 58 from ../../../starting_files/query.hhr.

alignment between ../.., 3p7nA (e_value = 4e-16) (ln_e_value = -35.4550671267848)

reading data from 3p7nA … have 10333 distances for 3p7nA

finished reading data from 3p7nA.

finished alignment (3p7nA,1)

alignment between ../.., 1n9lA (e_value = 5.3e-16) (ln_e_value = -35.1736546673467)

reading data from 1n9lA … have 5226 distances for 1n9lA

finished reading data from 1n9lA.

finished alignment (1n9lA,2)

alignment between ../.., 2v0uA (e_value = 4.4e-16) (ln_e_value = -35.3597569469805)

reading data from 2v0uA … have 7651 distances for 2v0uA

finished reading data from 2v0uA.

finished alignment (2v0uA,3)

alignment between ../.., 1bywA (e_value = 2.5e-15) (ln_e_value = -33.6224856630365)

reading data from 1bywA … have 5923 distances for 1bywA

finished reading data from 1bywA.

finished alignment (1bywA,4)

alignment between ../.., 2wkqA (e_value = 1.6e-15) (ln_e_value = -34.068772765665)

reading data from 2wkqA … have 17635 distances for 2wkqA

finished reading data from 2wkqA.

finished alignment (2wkqA,5)

alignment between ../.., 3d72A (e_value = 1.1e-14) (ln_e_value = -32.1408811221123)

reading data from 3d72A … have 7623 distances for 3d72A

finished reading data from 3d72A.

finished alignment (3d72A,6)

alignment between ../.., 2z6dA (e_value = 1e-13) (ln_e_value = -29.9336062089226)

reading data from 2z6dA … have 5559 distances for 2z6dA

finished reading data from 2z6dA.

Error: burial not defined for 2z6dA, residue 119

Error: burial not defined for 2z6dA, residue 120

Error: burial not defined for 2z6dA, residue 121

Error: burial not defined for 2z6dA, residue 122

Error: burial not defined for 2z6dA, residue 123

Error: burial not defined for 2z6dA, residue 124

Error: burial not defined for 2z6dA, residue 125

Error: burial not defined for 2z6dA, residue 126

Error: burial not defined for 2z6dA, residue 127

Error: burial not defined for 2z6dA, residue 128

Error: burial not defined for 2z6dA, residue 129

Error: burial not defined for 2z6dA, residue 130

finished alignment (2z6dA,7)

alignment between ../.., 2l0wA (e_value = 3.1e-13) (ln_e_value = -28.8022040974315)

reading data from 2l0wA … have 6400 distances for 2l0wA

finished reading data from 2l0wA.

Error: burial not defined for 2l0wA, residue 136

Error: burial not defined for 2l0wA, residue 137

Error: burial not defined for 2l0wA, residue 138

finished alignment (2l0wA,

alignment between ../.., 2pr5A (e_value = 4.3e-13) (ln_e_value = -28.4749911862231)

reading data from 2pr5A … have 6115 distances for 2pr5A

finished reading data from 2pr5A.

finished alignment (2pr5A,9)

alignment between ../.., 3lyxA (e_value = 3.6e-11) (ln_e_value = -24.0475021774724)

reading data from 3lyxA … have 5490 distances for 3lyxA

finished reading data from 3lyxA.

Error: burial not defined for 3lyxA, residue 119

Error: burial not defined for 3lyxA, residue 120

Error: burial not defined for 3lyxA, residue 121

Error: burial not defined for 3lyxA, residue 122

Error: burial not defined for 3lyxA, residue 123

finished alignment (3lyxA,10)

alignment between ../.., 2gj3A (e_value = 7.5e-11) (ln_e_value = -23.3135330023922)

reading data from 2gj3A … have 5731 distances for 2gj3A

finished reading data from 2gj3A.

finished alignment (2gj3A,11)

alignment between ../.., 3f1pB (e_value = 7.5e-09) (ln_e_value = -18.7083628164041)

reading data from 3f1pB … have 6178 distances for 3f1pB

finished reading data from 3f1pB.

Error: burial not defined for 3f1pB, residue 113

Error: burial not defined for 3f1pB, residue 114

Error: burial not defined for 3f1pB, residue 115

Error: burial not defined for 3f1pB, residue 116

Error: burial not defined for 3f1pB, residue 117

Error: burial not defined for 3f1pB, residue 118

Error: burial not defined for 3f1pB, residue 119

Error: burial not defined for 3f1pB, residue 120

Error: burial not defined for 3f1pB, residue 121

finished alignment (3f1pB,12)

alignment between ../.., 3f1pA (e_value = 2.9e-09) (ln_e_value = -19.658555099954)

reading data from 3f1pA … have 6121 distances for 3f1pA

finished reading data from 3f1pA.

Error: burial not defined for 3f1pA, residue 115

Error: burial not defined for 3f1pA, residue 116

finished alignment (3f1pA,13)

alignment between ../.., 3h9wA (e_value = 5e-09) (ln_e_value = -19.1138279245123)

reading data from 3h9wA … have 6121 distances for 3h9wA

finished reading data from 3h9wA.

Error: burial not defined for 3h9wA, residue 110

finished alignment (3h9wA,14)

alignment between ../.., 2qkpA (e_value = 5.8e-08) (ln_e_value = -16.6628228264)

reading data from 2qkpA … have 6607 distances for 2qkpA

finished reading data from 2qkpA.

finished alignment (2qkpA,15)

alignment between ../.., 3mqqA (e_value = 7.8e-09) (ln_e_value = -18.6691421032509)

reading data from 3mqqA … have 6089 distances for 3mqqA

finished reading data from 3mqqA.

Error: burial not defined for 3mqqA, residue 114

Error: burial not defined for 3mqqA, residue 115

Error: burial not defined for 3mqqA, residue 116

Error: burial not defined for 3mqqA, residue 117

Error: burial not defined for 3mqqA, residue 118

Error: burial not defined for 3mqqA, residue 119

Error: burial not defined for 3mqqA, residue 120

finished alignment (3mqqA,16)

alignment between ../.., 1v9yA (e_value = 7.9e-09) (ln_e_value = -18.6564030774734)

reading data from 1v9yA … have 5264 distances for 1v9yA

finished reading data from 1v9yA.

Error: burial not defined for 1v9yA, residue 105

Error: burial not defined for 1v9yA, residue 106

Error: burial not defined for 1v9yA, residue 107

Error: burial not defined for 1v9yA, residue 112

Error: burial not defined for 1v9yA, residue 113

Error: burial not defined for 1v9yA, residue 114

Error: burial not defined for 1v9yA, residue 115

Error: burial not defined for 1v9yA, residue 116

Error: burial not defined for 1v9yA, residue 117

Error: burial not defined for 1v9yA, residue 118

Error: burial not defined for 1v9yA, residue 119

Error: burial not defined for 1v9yA, residue 120

Error: burial not defined for 1v9yA, residue 121

Error: burial not defined for 1v9yA, residue 122

Error: burial not defined for 1v9yA, residue 123

Error: burial not defined for 1v9yA, residue 125

Error: burial not defined for 1v9yA, residue 126

Error: burial not defined for 1v9yA, residue 127

Error: burial not defined for 1v9yA, residue 128

Error: burial not defined for 1v9yA, residue 130

Error: burial not defined for 1v9yA, residue 131

Error: burial not defined for 1v9yA, residue 135

Error: burial not defined for 1v9yA, residue 136

Error: burial not defined for 1v9yA, residue 137

Error: burial not defined for 1v9yA, residue 138

Error: burial not defined for 1v9yA, residue 139

Error: burial not defined for 1v9yA, residue 140

Error: burial not defined for 1v9yA, residue 141

Error: burial not defined for 1v9yA, residue 142

Error: burial not defined for 1v9yA, residue 143

Error: burial not defined for 1v9yA, residue 144

Error: burial not defined for 1v9yA, residue 145

Error: burial not defined for 1v9yA, residue 146

Error: burial not defined for 1v9yA, residue 147

Error: burial not defined for 1v9yA, residue 148

Error: burial not defined for 1v9yA, residue 149

Error: burial not defined for 1v9yA, residue 151

Error: burial not defined for 1v9yA, residue 152

Error: burial not defined for 1v9yA, residue 153

Error: burial not defined for 1v9yA, residue 154

Error: burial not defined for 1v9yA, residue 155

Error: burial not defined for 1v9yA, residue 156

Error: burial not defined for 1v9yA, residue 157

Error: burial not defined for 1v9yA, residue 158

Error: burial not defined for 1v9yA, residue 159

Error: burial not defined for 1v9yA, residue 160

Error: burial not defined for 1v9yA, residue 161

finished alignment (1v9yA,17)

alignment between ../.., 3luqA (e_value = 5.9e-08) (ln_e_value = -16.6457283930407)

reading data from 3luqA … have 6154 distances for 3luqA

finished reading data from 3luqA.

Error: burial not defined for 3luqA, residue 113

Error: burial not defined for 3luqA, residue 114

finished alignment (3luqA,18)

alignment between ../.., 3mjqA (e_value = 2.4e-08) (ln_e_value = -17.5452120065985)

reading data from 3mjqA … have 5626 distances for 3mjqA

finished reading data from 3mjqA.

Error: burial not defined for 3mjqA, residue 108

Error: burial not defined for 3mjqA, residue 109

Error: burial not defined for 3mjqA, residue 110

Error: burial not defined for 3mjqA, residue 111

Error: burial not defined for 3mjqA, residue 112

Error: burial not defined for 3mjqA, residue 113

Error: burial not defined for 3mjqA, residue 114

Error: burial not defined for 3mjqA, residue 115

Error: burial not defined for 3mjqA, residue 116

Error: burial not defined for 3mjqA, residue 117

finished alignment (3mjqA,19)

alignment between ../.., 3ewkA (e_value = 3.4e-08) (ln_e_value = -17.1969053123302)

reading data from 3ewkA … have 11544 distances for 3ewkA

finished reading data from 3ewkA.

finished alignment (3ewkA,20)

alignment between ../.., 3bwlA (e_value = 5.7e-08) (ln_e_value = -16.6802145691119)

reading data from 3bwlA … have 6374 distances for 3bwlA

finished reading data from 3bwlA.

Error: burial not defined for 3bwlA, residue 126

finished alignment (3bwlA,21)

alignment between ../.., 3ewkA (e_value = 1.8e-07) (ln_e_value = -15.5303089860562)

finished alignment (3ewkA,22)

alignment between ../.., 2kdkA (e_value = 3.3e-07) (ln_e_value = -14.9241731824859)

reading data from 2kdkA … have 6796 distances for 2kdkA

finished reading data from 2kdkA.

Error: burial not defined for 2kdkA, residue 119

Error: burial not defined for 2kdkA, residue 120

Error: burial not defined for 2kdkA, residue 121

finished alignment (2kdkA,23)

alignment between ../.., 3eehA (e_value = 2.6e-07) (ln_e_value = -15.1625842059309)

reading data from 3eehA … have 5933 distances for 3eehA

finished reading data from 3eehA.

Error: burial not defined for 3eehA, residue 117

Error: burial not defined for 3eehA, residue 118

Error: burial not defined for 3eehA, residue 119

Error: burial not defined for 3eehA, residue 120

Error: burial not defined for 3eehA, residue 122

Error: burial not defined for 3eehA, residue 123

Error: burial not defined for 3eehA, residue 124

Error: burial not defined for 3eehA, residue 125

finished alignment (3eehA,24)

alignment between ../.., 3mr0A (e_value = 3.8e-07) (ln_e_value = -14.783094584226)

reading data from 3mr0A … have 6627 distances for 3mr0A

finished reading data from 3mr0A.

finished alignment (3mr0A,25)

alignment between ../.., 3mxqA (e_value = 1.5e-07) (ln_e_value = -15.7126305428502)

reading data from 3mxqA … have 6038 distances for 3mxqA

finished reading data from 3mxqA.

Error: burial not defined for 3mxqA, residue 128

Error: burial not defined for 3mxqA, residue 129

Error: burial not defined for 3mxqA, residue 130

Error: burial not defined for 3mxqA, residue 131

Error: burial not defined for 3mxqA, residue 132

Error: burial not defined for 3mxqA, residue 133

Error: burial not defined for 3mxqA, residue 135

Error: burial not defined for 3mxqA, residue 136

Error: burial not defined for 3mxqA, residue 137

Error: burial not defined for 3mxqA, residue 138

Error: burial not defined for 3mxqA, residue 139

Error: burial not defined for 3mxqA, residue 140

Error: burial not defined for 3mxqA, residue 142

Error: burial not defined for 3mxqA, residue 143

Error: burial not defined for 3mxqA, residue 144

Error: burial not defined for 3mxqA, residue 145

Error: burial not defined for 3mxqA, residue 146

Error: burial not defined for 3mxqA, residue 147

Error: burial not defined for 3mxqA, residue 148

Error: burial not defined for 3mxqA, residue 149

Error: burial not defined for 3mxqA, residue 150

Error: burial not defined for 3mxqA, residue 151

Error: burial not defined for 3mxqA, residue 152

finished alignment (3mxqA,26)

alignment between ../.., 2vv6A (e_value = 3.1e-07) (ln_e_value = -14.9866935394672)

reading data from 2vv6A … have 5185 distances for 2vv6A

finished reading data from 2vv6A.

Error: burial not defined for 2vv6A, residue 107

Error: burial not defined for 2vv6A, residue 108

Error: burial not defined for 2vv6A, residue 109

Error: burial not defined for 2vv6A, residue 110

Error: burial not defined for 2vv6A, residue 111

Error: burial not defined for 2vv6A, residue 112

Error: burial not defined for 2vv6A, residue 113

Error: burial not defined for 2vv6A, residue 114

finished alignment (2vv6A,27)

alignment between ../.., 2vlgA (e_value = 2.7e-07) (ln_e_value = -15.124843877948)

reading data from 2vlgA … have 4899 distances for 2vlgA

finished reading data from 2vlgA.

Error: burial not defined for 2vlgA, residue 94

Error: burial not defined for 2vlgA, residue 95

Error: burial not defined for 2vlgA, residue 96

Error: burial not defined for 2vlgA, residue 98

Error: burial not defined for 2vlgA, residue 99

Error: burial not defined for 2vlgA, residue 100

Error: burial not defined for 2vlgA, residue 101

Error: burial not defined for 2vlgA, residue 102

Error: burial not defined for 2vlgA, residue 103

Error: burial not defined for 2vlgA, residue 105

Error: burial not defined for 2vlgA, residue 106

Error: burial not defined for 2vlgA, residue 107

Error: burial not defined for 2vlgA, residue 108

Error: burial not defined for 2vlgA, residue 109

Error: burial not defined for 2vlgA, residue 110

Error: burial not defined for 2vlgA, residue 111

finished alignment (2vlgA,28)

alignment between ../.., 3icyA (e_value = 6.4e-07) (ln_e_value = -14.2617976605927)

reading data from 3icyA … have 4762 distances for 3icyA

finished reading data from 3icyA.

finished alignment (3icyA,29)

alignment between ../.., 2r78A (e_value = 3.2e-07) (ln_e_value = -14.9549448411526)

reading data from 2r78A … have 5420 distances for 2r78A

finished reading data from 2r78A.

Error: burial not defined for 2r78A, residue 115

Error: burial not defined for 2r78A, residue 116

Error: burial not defined for 2r78A, residue 117

finished alignment (2r78A,30)

alignment between ../.., 3njaA (e_value = 7.3e-07) (ln_e_value = -14.130221302804)

reading data from 3njaA … have 4387 distances for 3njaA

finished reading data from 3njaA.

Error: burial not defined for 3njaA, residue 107

Error: burial not defined for 3njaA, residue 108

Error: burial not defined for 3njaA, residue 109

Error: burial not defined for 3njaA, residue 111

Error: burial not defined for 3njaA, residue 112

Error: burial not defined for 3njaA, residue 113

Error: burial not defined for 3njaA, residue 114

Error: burial not defined for 3njaA, residue 115

Error: burial not defined for 3njaA, residue 116

Error: burial not defined for 3njaA, residue 118

Error: burial not defined for 3njaA, residue 119

Error: burial not defined for 3njaA, residue 120

Error: burial not defined for 3njaA, residue 121

Error: burial not defined for 3njaA, residue 122

Error: burial not defined for 3njaA, residue 123

Error: burial not defined for 3njaA, residue 124

Error: burial not defined for 3njaA, residue 125

finished alignment (3njaA,31)

alignment between ../.., 3kx0X (e_value = 8.4e-07) (ln_e_value = -13.9898639451091)

reading data from 3kx0X … have 5939 distances for 3kx0X

finished reading data from 3kx0X.

Error: burial not defined for 3kx0X, residue 128

Error: burial not defined for 3kx0X, residue 132

Error: burial not defined for 3kx0X, residue 133

Error: burial not defined for 3kx0X, residue 134

Error: burial not defined for 3kx0X, residue 136

Error: burial not defined for 3kx0X, residue 137

Error: burial not defined for 3kx0X, residue 138

Error: burial not defined for 3kx0X, residue 139

Error: burial not defined for 3kx0X, residue 140

Error: burial not defined for 3kx0X, residue 141

Error: burial not defined for 3kx0X, residue 143

Error: burial not defined for 3kx0X, residue 144

Error: burial not defined for 3kx0X, residue 145

Error: burial not defined for 3kx0X, residue 146

Error: burial not defined for 3kx0X, residue 147

Error: burial not defined for 3kx0X, residue 148

Error: burial not defined for 3kx0X, residue 150

Error: burial not defined for 3kx0X, residue 151

Error: burial not defined for 3kx0X, residue 152

Error: burial not defined for 3kx0X, residue 153

Error: burial not defined for 3kx0X, residue 154

Error: burial not defined for 3kx0X, residue 155

Error: burial not defined for 3kx0X, residue 156

Error: burial not defined for 3kx0X, residue 157

Error: burial not defined for 3kx0X, residue 158

Error: burial not defined for 3kx0X, residue 159

Error: burial not defined for 3kx0X, residue 160

finished alignment (3kx0X,32)

alignment between ../.., 3caxA (e_value = 5.2e-06) (ln_e_value = -12.1668519323769)

reading data from 3caxA … have 19287 distances for 3caxA

finished reading data from 3caxA.

Error: burial not defined for 3caxA, residue 356

Error: burial not defined for 3caxA, residue 357

Error: burial not defined for 3caxA, residue 358

finished alignment (3caxA,33)

alignment between ../.., 3k3cA (e_value = 1.5e-06) (ln_e_value = -13.4100454498561)

reading data from 3k3cA … have 7074 distances for 3k3cA

finished reading data from 3k3cA.

finished alignment (3k3cA,34)

alignment between ../.., 3mfxA (e_value = 1.8e-06) (ln_e_value = -13.2277238930622)

reading data from 3mfxA … have 5739 distances for 3mfxA

finished reading data from 3mfxA.

Error: burial not defined for 3mfxA, residue 113

Error: burial not defined for 3mfxA, residue 114

Error: burial not defined for 3mfxA, residue 115

Error: burial not defined for 3mfxA, residue 116

Error: burial not defined for 3mfxA, residue 117

Error: burial not defined for 3mfxA, residue 118

Error: burial not defined for 3mfxA, residue 120

Error: burial not defined for 3mfxA, residue 121

Error: burial not defined for 3mfxA, residue 122

finished alignment (3mfxA,35)

alignment between ../.., 3gdiA (e_value = 3.4e-06) (ln_e_value = -12.5917351263422)

reading data from 3gdiA … have 14920 distances for 3gdiA

finished reading data from 3gdiA.

Error: burial not defined for 3gdiA, residue 270

Error: burial not defined for 3gdiA, residue 271

Error: burial not defined for 3gdiA, residue 272

Error: burial not defined for 3gdiA, residue 273

Error: burial not defined for 3gdiA, residue 274

Error: burial not defined for 3gdiA, residue 275

Error: burial not defined for 3gdiA, residue 276

Error: burial not defined for 3gdiA, residue 277

finished alignment (3gdiA,36)

alignment between ../.., 3oloA (e_value = 1e-06) (ln_e_value = -13.8155105579643)

reading data from 3oloA … have 6042 distances for 3oloA

finished reading data from 3oloA.

Error: burial not defined for 3oloA, residue 112

Error: burial not defined for 3oloA, residue 113

Error: burial not defined for 3oloA, residue 115

Error: burial not defined for 3oloA, residue 116

Error: burial not defined for 3oloA, residue 117

Error: burial not defined for 3oloA, residue 118

finished alignment (3oloA,37)

alignment between ../.., 1d06A (e_value = 5.1e-06) (ln_e_value = -12.186270018234)

reading data from 1d06A … have 6162 distances for 1d06A

finished reading data from 1d06A.

finished alignment (1d06A,38)

alignment between ../.., 3a0sA (e_value = 2.8e-05) (ln_e_value = -10.4833060477891)

reading data from 3a0sA … have 5308 distances for 3a0sA

finished reading data from 3a0sA.

finished alignment (3a0sA,39)

alignment between ../.., 3b33A (e_value = 7.6e-06) (ln_e_value = -11.787362310672)

reading data from 3b33A … have 5551 distances for 3b33A

finished reading data from 3b33A.

Error: burial not defined for 3b33A, residue 110

Error: burial not defined for 3b33A, residue 111

Error: burial not defined for 3b33A, residue 112

Error: burial not defined for 3b33A, residue 113

Error: burial not defined for 3b33A, residue 114

finished alignment (3b33A,40)

alignment between ../.., 1ll8A (e_value = 1.7e-05) (ln_e_value = -10.9822972139081)

reading data from 1ll8A … have 5926 distances for 1ll8A

finished reading data from 1ll8A.

finished alignment (1ll8A,41)

alignment between ../.., 1nwzA (e_value = 0.0001) (ln_e_value = -9.21034037197618)

reading data from 1nwzA … have 7010 distances for 1nwzA

finished reading data from 1nwzA.

finished alignment (1nwzA,42)

alignment between ../.., 3a0rA (e_value = 4.7e-05) (ln_e_value = -9.96536295625422)

reading data from 3a0rA … have 17656 distances for 3a0rA

finished reading data from 3a0rA.

finished alignment (3a0rA,43)

alignment between ../.., 3fg8A (e_value = 0.00016) (ln_e_value = -8.74033674273045)

reading data from 3fg8A … have 5146 distances for 3fg8A

finished reading data from 3fg8A.

Error: burial not defined for 3fg8A, residue 107

Error: burial not defined for 3fg8A, residue 108

Error: burial not defined for 3fg8A, residue 109

Error: burial not defined for 3fg8A, residue 110

Error: burial not defined for 3fg8A, residue 111

Error: burial not defined for 3fg8A, residue 113

Error: burial not defined for 3fg8A, residue 114

Error: burial not defined for 3fg8A, residue 115

Error: burial not defined for 3fg8A, residue 116

Error: burial not defined for 3fg8A, residue 117

Error: burial not defined for 3fg8A, residue 118

finished alignment (3fg8A,44)

alignment between ../.., 3fc7A (e_value = 0.00025) (ln_e_value = -8.29404964010203)

reading data from 3fc7A … have 4904 distances for 3fc7A

finished reading data from 3fc7A.

Error: burial not defined for 3fc7A, residue 103

Error: burial not defined for 3fc7A, residue 104

Error: burial not defined for 3fc7A, residue 105

Error: burial not defined for 3fc7A, residue 106

Error: burial not defined for 3fc7A, residue 107

Error: burial not defined for 3fc7A, residue 108

Error: burial not defined for 3fc7A, residue 109

Error: burial not defined for 3fc7A, residue 110

Error: burial not defined for 3fc7A, residue 111

Error: burial not defined for 3fc7A, residue 112

Error: burial not defined for 3fc7A, residue 113

Error: burial not defined for 3fc7A, residue 115

Error: burial not defined for 3fc7A, residue 116

Error: burial not defined for 3fc7A, residue 117

Error: burial not defined for 3fc7A, residue 118

Error: burial not defined for 3fc7A, residue 119

Error: burial not defined for 3fc7A, residue 120

Error: burial not defined for 3fc7A, residue 122

Error: burial not defined for 3fc7A, residue 123

Error: burial not defined for 3fc7A, residue 124

Error: burial not defined for 3fc7A, residue 125

finished alignment (3fc7A,45)

alignment between ../.., 1wa9A (e_value = 0.00037) (ln_e_value = -7.902007552326)

reading data from 1wa9A … have 16332 distances for 1wa9A

finished reading data from 1wa9A.

finished alignment (1wa9A,46)

alignment between ../.., 1mzuA (e_value = 0.00058) (ln_e_value = -7.45248245442381)

reading data from 1mzuA … have 5503 distances for 1mzuA

finished reading data from 1mzuA.

Error: burial not defined for 1mzuA, residue 109

Error: burial not defined for 1mzuA, residue 110

Error: burial not defined for 1mzuA, residue 112

Error: burial not defined for 1mzuA, residue 113

Error: burial not defined for 1mzuA, residue 114

Error: burial not defined for 1mzuA, residue 116

Error: burial not defined for 1mzuA, residue 117

Error: burial not defined for 1mzuA, residue 118

Error: burial not defined for 1mzuA, residue 119

Error: burial not defined for 1mzuA, residue 120

Error: burial not defined for 1mzuA, residue 121

Error: burial not defined for 1mzuA, residue 122

Error: burial not defined for 1mzuA, residue 123

Error: burial not defined for 1mzuA, residue 124

Error: burial not defined for 1mzuA, residue 125

Error: burial not defined for 1mzuA, residue 126

Error: burial not defined for 1mzuA, residue 127

Error: burial not defined for 1mzuA, residue 129

finished alignment (1mzuA,47)

alignment between ../.., 2w0nA (e_value = 3.4e-05) (ln_e_value = -10.2891500333481)

reading data from 2w0nA … have 4638 distances for 2w0nA

finished reading data from 2w0nA.

finished alignment (2w0nA,48)

alignment between ../.., 3gdiA (e_value = 0.0032) (ln_e_value = -5.74460446917646)

finished alignment (3gdiA,49)

alignment between ../.., 1wa9A (e_value = 0.0072) (ln_e_value = -4.93367425296013)

finished alignment (1wa9A,50)

alignment between ../.., 1oj5A (e_value = 0.0098) (ln_e_value = -4.62537289330561)

reading data from 1oj5A … have 5217 distances for 1oj5A

finished reading data from 1oj5A.

Error: burial not defined for 1oj5A, residue 106

Error: burial not defined for 1oj5A, residue 107

Error: burial not defined for 1oj5A, residue 109

Error: burial not defined for 1oj5A, residue 110

Error: burial not defined for 1oj5A, residue 111

Error: burial not defined for 1oj5A, residue 112

Error: burial not defined for 1oj5A, residue 113

Error: burial not defined for 1oj5A, residue 114

Error: burial not defined for 1oj5A, residue 115

Error: burial not defined for 1oj5A, residue 116

Error: burial not defined for 1oj5A, residue 117

Error: burial not defined for 1oj5A, residue 118

Error: burial not defined for 1oj5A, residue 119

Error: burial not defined for 1oj5A, residue 120

Error: burial not defined for 1oj5A, residue 121

Error: burial not defined for 1oj5A, residue 122

Error: burial not defined for 1oj5A, residue 123

Error: burial not defined for 1oj5A, residue 124

Error: burial not defined for 1oj5A, residue 125

Error: burial not defined for 1oj5A, residue 126

Error: burial not defined for 1oj5A, residue 127

Error: burial not defined for 1oj5A, residue 128

finished alignment (1oj5A,51)

alignment between ../.., 2jheA (e_value = 0.074) (ln_e_value = -2.60369018577797)

reading data from 2jheA … have 9082 distances for 2jheA

finished reading data from 2jheA.

finished alignment (2jheA,52)

e_value 8.7 > 1, skipping!

e_value 22 > 1, skipping!

e_value 19 > 1, skipping!

e_value 2.9 > 1, skipping!

e_value 17 > 1, skipping!

e_value 29 > 1, skipping!

Error: executable /Users/mariuswanko/dev/rosetta/main/source/bin//bin/template_features.macosclangrelease doesn’t exist!

Unfortunately, it seems that I didn’t have template_features.macosclangrelease file into my rosetta/main/source/bin/ directory. When looking this file, I didn’t find it into my rosetta/main/source/bin/ directory.

Dear sir, could you help me to fix that?

Thank you against for help.

Kind Regards,

Marius

[Author]

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