DRAFT: Pulseq v1.5.0 implementations

[schuenke]

This is just a draft PR to keep track of all changes and potential merge conflicts with recent commits...

[mcencini]

Hi, sorry I did not open it myself - I wanted to open it after soft delay was completed but then got a bit caught by the ISMRM deadline

[github-actions[bot]]

Coverage Report

File	Stmts	Miss	Cover	Missing
/home/runner/.local/lib/python3.12/site-packages/pypulseq
add_gradients.py	137	60	56%	44, 52, 58, 61, 75–86, 92, 125–128, 135–136, 155, 162, 167–263
add_ramps.py	36	36	0%	1–92
align.py	35	4	89%	41, 45, 69, 73
calc_duration.py	25	1	96%	37
calc_ramp.py	220	216	2%	48–359
calc_rf_bandwidth.py	35	26	26%	45–78, 82–86
check_timing.py	96	29	70%	78, 82, 107, 180, 199, 232, 239, 249–293
compress_shape.py	30	1	97%	28
convert.py	40	8	80%	42, 48, 66, 72–73, 82, 88–89
event_lib.py	96	15	84%	6–9, 48–51, 70–71, 205–210, 247
make_adc.py	98	14	86%	77, 80, 90–94, 97, 146, 149, 153, 159, 163, 202, 204, 206, 214
make_adiabatic_pulse.py	132	39	70%	202–206, 226–230, 238–239, 262, 268, 337–356, 460–469, 507–515
make_arbitrary_grad.py	49	15	69%	72, 75, 78, 81, 89, 99, 105, 115, 117, 125–129, 138
make_arbitrary_rf.py	75	63	16%	93–179
make_block_pulse.py	48	3	94%	119–123, 126
make_delay.py	9	1	89%	27
make_digital_output_pulse.py	16	2	88%	39, 47
make_extended_trapezoid.py	56	12	79%	67, 70, 76, 82, 85, 88, 91, 94, 116, 134, 136, 139
make_extended_trapezoid_area.py	93	3	97%	52, 227, 230
make_gauss_pulse.py	72	20	72%	136–140, 143–167, 174, 177
make_label.py	22	4	82%	64, 66, 68, 75
make_sigpy_pulse.py	119	30	75%	12–13, 119, 122, 126, 163–167, 171, 174–175, 178–179, 194, 201, 206, 218, 221, 246–256, 270, 273, 303–313
make_sinc_pulse.py	70	10	86%	100, 106, 134–138, 142, 145–146, 149–150, 172
make_soft_delay.py	25	2	92%	102, 120
make_trapezoid.py	111	7	94%	177, 190, 196, 214, 232, 237, 255
make_trigger.py	16	2	88%	44, 52
opts.py	66	9	86%	78, 83, 102, 142, 166–170
points_to_waveform.py	9	1	89%	27
rotate.py	69	14	80%	15, 55, 66–69, 85–90, 112, 119–120
scale_grad.py	30	1	97%	65
sigpy_pulse_opts.py	26	7	73%	34–41
split_gradient.py	39	31	21%	46–103
split_gradient_at.py	70	27	61%	63–90, 110, 114, 118–120, 154–156
traj_to_grad.py	13	9	31%	26–40
/home/runner/.local/lib/python3.12/site-packages/pypulseq/SAR
SAR_calc.py	113	98	13%	33–40, 55–62, 89–108, 129–132, 168–212, 242–246, 264–306
/home/runner/.local/lib/python3.12/site-packages/pypulseq/Sequence
block.py	469	83	82%	63, 66, 74, 80, 95, 103, 109, 120, 123, 126, 134, 139, 148, 159, 167, 207, 209, 213, 226, 275, 279, 295, 320–346, 383–386, 392, 417–419, 422–430, 437, 467–471, 513, 519, 552, 588–595, 612, 622, 648, 686, 704, 707, 725, 739, 766, 845, 882, 906
calc_grad_spectrum.py	81	76	6%	68–190
calc_pns.py	40	31	22%	45–96
ext_test_report.py	144	12	92%	23, 61, 138, 149–150, 237–243
install.py	75	42	44%	31, 52, 69, 71, 112–131, 148, 181–184, 200–212, 254–278
parula.py	4	2	50%	19–86
read_seq.py	382	132	65%	43–44, 91, 94, 106, 111, 117, 124–125, 129, 138, 146–153, 157–160, 163, 175, 179–181, 213–224, 229, 237–294, 301–316, 331–401, 406–423, 486, 489, 524, 532, 570, 594, 633, 675–679, 794, 805
sequence.py	696	200	71%	10–13, 105–115, 136–149, 196, 261–264, 311, 338, 355, 403, 431, 458–463, 500, 516, 607, 635–644, 656, 678, 719–722, 776, 814, 825–826, 832, 843, 849, 851, 859, 892–900, 1030, 1095, 1101, 1104, 1107, 1144, 1269–1282, 1312, 1340, 1362–1364, 1385, 1448, 1456, 1523, 1534–1547, 1559–1570, 1616–1617, 1628–1646, 1670, 1700–1708, 1740–1866, 1902, 1916–1926, 1930, 1941
write_seq.py	358	176	51%	45, 69, 72–79, 310–533
/home/runner/.local/lib/python3.12/site-packages/pypulseq/utils
cumsum.py	14	1	93%	17
paper_plot.py	57	53	7%	45–121
safe_pns_prediction.py	126	113	10%	50–87, 102–189, 197–214, 222, 244–250, 279–286, 310–336, 344–383, 396–411, 415
seq_plot.py	207	75	64%	16, 88–89, 98–103, 106–141, 144–149, 167, 169, 172, 198–199, 202–205, 237, 252–262, 271–273, 291–293, 295–296, 298–299, 332–344, 359–360, 396–397
tracing.py	16	6	62%	33–34, 42, 54–55, 75
/home/runner/.local/lib/python3.12/site-packages/pypulseq/utils/siemens
asc_to_hw.py	58	53	9%	21–28, 48–106
readasc.py	48	45	6%	25–100
TOTAL	5077	1920	62%

Tests	Skipped	Failures	Errors	Time
1375	21 :zzz:	13 :x:	0 :fire:	3m 28s :stopwatch: